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The configuration files provided here produced the CROCO model output analysed in "The land-sea breeze influences the oceanography of the southern Benguela upwelling system at multiple time-scales" by Fearon et. al (2023) submitted to Frontiers in Marine Science, section Physical Oceanography. The provided files include the adopted compile options, code used to generate the model forcing files (grids, boundary conditions and surface forcing), and model runtime settings.

There are several research infrastructures or other data services running in Europe that cover a multitude of marine-related sciences, providing specific datasets coming from observations collected with different methods. These infrastructures constitute a diverse world, each looking at a piece of the big picture, sometimes hindering collaboration and data sharing. Blue-Cloud aims to overcome fragmentation and build a bridge between thematic science clusters - such as marine, climate, food and agriculture sciences - and EOSC, creating a data federation and providing a common access to a so-called thematic EOSC for marine data. By connecting leading marine data management infrastructures with horizontal e-infrastructures, the project aims to maximise the exploitation of data resources available from different sources. The Blue-Cloud framework consists of two major technical components: (1) a Blue-Cloud Data Discovery and Access service, already presented in a previous EOSC in practice story, to serve federated discovery and access to blue data infrastructures, and (2) a Blue-Cloud Virtual Research Environment (VRE) to provide computing platforms and analytical services facilitating the collaboration between researchers, which is detailed hereafter. The Blue-Cloud VRE is powered by the D4Science Infrastructure. [M. Assante et al. (2019) Enacting open science by D4Science. Future Gener. Comput. Syst. 101: 555-563 10.1016/j.future.2019.05.063 ] The full list of EOSC in practice stories is available here

Argo is a real-time global ocean in situ observing system. It provides thousands of highly accurate ocean measurements every day. The Argo dataset has now accumulated more than 2.3 million vertical ocean profiles and accessing it for scientific analysis remains a challenge.The Argo expert community, focused on delivering a curated dataset of the best scientific quality possible, has never provided its user base with a Python software package to easily access and manipulate Argo measurements: the argopy software aims to fill this gap. The argopy software can be used to easily fetch and manipulate measurements from Argo floats. It is dedicated to scientists without knowledge of the Argo data management system but is also designed to accommodate expert requirements.

Acclimation of corals to light is known to rely on multiple strategies working at different timescales. Among them, photosynthetic alternative electron flows (AEFs) could act as photoprotective mechanisms under fluctuating light intensities. In this work, we first compared the use of AEFs in shallow and mesophotic colonies of the coral Stylophora pistillata by carrying out joint measurements of oxygen exchange and photosystems quantum yields. We observed similar capacities to re-route photosynthetically derived electrons toward oxygen (Mehler reaction) and to perform cyclic electron flow around photosystem I under high light intensity in both colony types. But in contrast to mesophotic colonies that hosted Cladocopium, the photosynthetic apparatus of Symbiodinium microadriaticum hosted by their shallow counterparts was notably able to drive a higher number of electrons, displayed a higher thermal dissipation of absorbed light energy. Then, a short-term light stress was applied to evaluate the plasticity of the photosynthetic apparatus. Both shallow and mesophotic colonies showed fast acclimation to the low light regime. In contrast, under the high light regime, mesophotic colonies showed a limited capacity to dissipate light energy and were strongly photoinhibited, though their PSI activity was partly preserved and likely involved cyclic electron flow. This study shows how important the photosynthetic alternative electron flows are in acclimation processes to light and how the plasticity of the photosynthetic processes in Symbiodiniaceae may shape the vertical distribution of the coral holobionts.

The multi-species ecosystem model SS-DBEM integrates a species based model (DBEM) with the spectrum approach (SS). This model includes a large number of mechanisms and ecological processes such as population growth, movement, and dispersal of adults and larvae, as well as the ecophysiological effects of temperature, oxygen, and pH on body size, growth, mortality, and reproduction. The SS-DBEM model provides spatially (at a 0.5x0.5º resolution) and temporally (yearly) resolved predictions of changes in species’ size, abundance and biomass with consideration of competition. The competition algorithm describes the resource allocation between different species co-occurring in a spatial unit (thereafter cell) by comparing the flux of energy (in biomass) that can be supported (estimated with the SS model) with the energy demanded by the species predicted to inhabit that cell (estimated with the DBEM model). In addition, the environmental conditions are considered in the mechanisms and since there are different environmental conditions that are provided by the biogeochemical models, species responses are also different spatially. See readme.txt for scientific publications developing and using the model.

Momarsat 2022 cruise report: summary of dives and operations, and position of moorings and observation infrastructures and sampling locations

These data consist of both underway and station echosounder observations collected during the 2020 SUMMER (Sustainable Management of Mesopelagic Resources) Mediterranean cruise (30 September 2020 to 18 October 2020) on the RV Sarmiento de Gamboa. Narrowband (18, 38, 70, 120, 200 kHz) underway acoustic data were collected continuously using hull-mounted Simrad EK80 echosounders. The recording depths for the 5 frequencies were 1000, 1000, 750, 500, and 200 m respectively. Calibrations were carried out on the 1st of October 2020 using a 33 mm tungsten sphere,and the calibration results were applied to the instruments. During the survey, a Simrad wideband autonomous receiver (WBAT) was deployed down to a depth of 500 m whilst on station. In total, 31 drops were carried out at 5 stations. Four transducers (central frequencies were 45, 120, 200, 333 kHz) were operated using the WBAT in frequency modulated (FM) mode (bandwidth ranging from 45 to 445 kHz). The WBAT calibration data were collected using a 33 mm tungsten sphere. During the deployment of the WBAT, the hull-mounted EK80 was switched to FM mode to record broadband measurements. Raw power (W), number of transducer segments and transceiver impedance (Ohm) were stored in raw proprietary Simrad format (.raw, .idx).

We provide two instrumental records of air pressure and temperature for the Alpine cities of Rovereto and Bolzano/Bozen, covering the periods 1800-1839 and 1842-1849, respectively. They were measured by two physics teachers and digitized at the University of Bern from a handwritten weather diary and a local newspaper. In addition to the raw (sub-daily) data, we provide daily and monthly means together with a quantitative estimation of their uncertainty. The data were converted to modern units, quality controlled, and homogenized.

This data set includes hydrographic and pore water and core incubation silicic acid concentration and isotope measurements, sediment Si-HCl and Si-Alk contents and isotope measurements, and pore water nutrient, major, and trace element concentrations measured in the fjords Ameralik Fjord and Nuup Kangerlua (Godhäbsfjord) in southwest Greenland. Data was collected during a research expedition, R/V Tulu 2019, in September 2019, as part of ERC funded (678371) project ICY-LAB (Isotope CYcling in the LABrador Sea) and Royal Society funded (RGF\EA\181036) project Biogeochemical Cycling in Greenlandic Fjords. Temperature and salinity data derived from CTD rosette casts were recorded at station AM10 in Ameralik Fjord and station GF-inlet in Nuup Kangerlua. Fjord water sampling was carried out at 2 stations (AM10 and AM12) in Ameralik Fjord and station GF-inlet in Nuup Kangerlua using Towfish and Niskin bottles for near surface and sub surface samples, respectively. For bottle samples, temperature and salinity were measured using an EXO3 Multiparameter Water Quality Sonde. Fjord sediments were collected by a large bore sediment corer (Aquatic Research Instruments) at station AM10a in Ameralik Fjord and station GF-inlet in Nuup Kangerlua. Pore waters were extracted from the sediment cores using Rhizon samplers and core incubation experiments were carried out following the methodology of Hammond et al. (2004, doi:10.4319/lom.2004.2.146). Sediment reactive silica was leached using a sequential extraction method from Michalopoulos and Aller (2004, doi:10.1016/j.gca.2003.07.018) and Pickering et al. (2020, doi:10.1029/2020GL087877).