cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17882/45461
title: MEOP-CTD in-situ data collection: a Southern ocean Marine-mammals calibrated sea water temperatures and salinities observations

description: The Southern Ocean plays a fundamental role in regulating the global climate. This ocean also contains a rich and highly productive ecosystem, potentially vulnerable to climate change. Very large national and international efforts are directed towards the modeling of physical oceanographic processes to predict the response of the Southern Ocean to global climate change and the role played by the large-scale ocean climate processes. However, these modeling efforts are greatly limited by the lack of in situ measurements, especially at high latitudes and during winter months. The standard data that are needed to study ocean circulation are vertical profiles of temperature and salinity, from which we can deduce the density of seawater. These are collected with CTD (Conductivity-Temperature-Depth) sensors that are usually deployed on research vessels or, more recently, on autonomous Argo profilers. The use of conventional research vessels to collect these data is very expensive, and does not guarantee access to areas where sea ice is found at the surface of the ocean during the winter months. A recent alternative is the use of autonomous Argo floats. However, this technology is not easy to use in glaciated areas.
In this context, the collection of hydrographic profiles from CTDs mounted on marine mammals is very advantageous. The choice of species, gender or age can be done to selectively obtain data in particularly under-sampled areas such as under the sea ice or on continental shelves. Among marine mammals, elephant seals are particularly interesting. Indeed, they have the particularity to continuously dive to great depths (590 ± 200 m, with maxima around 2000 m) for long durations (average length of a dive 25 ± 15 min, maximum 80 min). A Conductivity-Temperature-Depth Satellite Relay Data Logger (CTD-SRDLs) has been developed in the early 2000s to sample temperature and salinity vertical profiles during marine mammal dives (Boehme et al. 2009, Fedak 2013). The CTD-SRDL is attached to the seal on land, then it records hydrographic profiles during its foraging trips, sending the data by satellite ARGOS whenever the seal goes back to the surface.While the principle intent of seal instrumentation was to improve understanding of seal foraging strategies (Biuw et al., 2007), it has also provided as a by-product a viable and cost-effective method of sampling hydrographic properties in many regions of the Southern Ocean (Charrassin et al., 2008; Roquet et al., 2013).
DOI: 10.17882/45980
title: BILLION observatory data

description: Long-term time series of temperature, current and particle flux in two submarine canyons at the eastern end (Planier Canyon) and southwestern end (Lacaze-Duthiers Canyon) of the Gulf of Lion (northwestern mediterranean).
DOI: 10.17882/55585
title: Individual isotopic ratio and trophic levels of fish species in the Eastern English Channel

description: This dataset gather isotopic ratios, sizes and masses measured on fish species collected in the English Channel, and trophic levels calculated for these individuals.
DOI: 10.17882/58105
title: Global maps of internal tide generation and dissipation

description: The dataset consists of global two-dimensional maps of internal tide energy sources and sinks, at half-degree horizontal resolution.
Estimated energy sources are provided for the three most energetic tidal constituents: M2, S2 and K1. They are decomposed into vertical normal modes. Units are Watts per square meter.
Estimated energy sinks are provided for each of M2, S2 and K1 and for 'All constituents'. 'All constituents' is an extrapolation to the eight most energetic tidal constituents, obtained as a weighted sum of M2, S2 and K1 fields. Energy sinks are depth-integrated and decomposed into five process contributions: (i) local dissipation of high modes; (ii) dissipation of low modes via wave-wave interactions; (iii) dissipation of low modes via scattering by abyssal hills; (iv) dissipation of low modes via critical reflection; (v) dissipation of low modes via shoaling. Units are Watts per square meter.
Methods and documentation can be found in the following publication: de Lavergne, C., Falahat, S., Madec, G., Roquet, F., Nycander, J., Vic, C. Toward global maps of internal tide energy sinks. Ocean Modelling, 137, 52-75 (2019). doi:10.1016/j.ocemod.2019.03.010. Provided maps of energy sinks correspond to the reference (REF) experiment described in the article.
DOI: 10.17882/84182
title: ORMEF: Occurrence Records of Mediterranean Exotic Fishes database

description: The ORMEF database is a comprehensive, and robust compilation of exotic fish observations recorded in the entire Mediterranean Region from 1896 to 2020. ORMEF is composed by 4015 geo-referenced occurrences distributed in the territorial waters of 20 Mediterranean Countries and extracted from 670 scientific published papers. The resultant database is a collection of 188 fish species that are categorized by the entering mean into the Mediterranean Basin in (i) EXOTIC CAN: species coming from Suez Canal; (ii) EXOTIC HM: species introduced by a human vector, e.g. from shipping, mariculture, aquarium release or by means of other human activities; (iii) NRE (natural range expansion): Atlantic species, coming from unassisted immigration through the strait of Gibraltar.
For each record (corresponding to an observation) the following parameters are reported: Species name, AphiaID (as identified by the World register of Marine Species, www. marinespecies.org), Family, Category, Year, Country, Precision of the record (that could be "Precise", "Approximate" of "Conventional"), Latitude, Longitude and the Literature corresponding source.
Each record in the ORMEF database has undergone a quality check for what concerns the accuracy of the source and both geographical and taxonomic biases. ORMEF could be very helpful to inform management strategies and policymakers since it represents a new authoritative reference for Mediterranean bio-invasion research.
DOI: 10.17882/91774
title: Mixed layer depth climatology computed with a density threshold criterion of 0.03kg/m3 from 10 m depth value

description: The dataset made available here is the monthly climatology (i.e. 12 months) of ocean surface Mixed Layer Depth (MLD) over the global ocean, at 1 degree x 1 degree spatial resolution. The climatology is based on about 7.3 million casts/profiles of temperature and salinity measurements made at sea between January 1970 and December 2021. Those profiles data come from the ARGO program and from the NCEI-NOAA World Ocean Database (WOD, Boyer et al. 2018). The MLD is computed on each individual cast/profile using a threshold criterion. The depth of the mixed layer is defined as the shallowest depth where the surface potential density of the profile is superior to a reference value taken close to the surface added with the chosen threshold. Here we take a threshold value for the density of 0.03kg/m3, and a surface reference depth fixed at 10m (de Boyer Montégut et al., 2004). This mixed layer is by definition homogeneous in density (up to 0.03 kg/m3 variations) and can also be called an isopycnal layer. It is especially intended for validation of MLD fields of the Ocean General Circulation Models of the ocean sciences community (e.g. Tréguier et al., 2023, Iovino et al. 2023, using v2022 of this dataset). More information and some other related datasets can be found at : https://cerweb.ifremer.fr/mld (or https://www.umr-lops.fr/en/Data/MLD redirecting to previous page).
DOI: 10.17882/96324
title: DEAFS – Deep-sea Autonomous and automated Fluid sampler data from the EMSO-Azores observatory, 2022

description: High temperature hydrothermal fluids are collected by the Deep-sea Autonomous and automated Fluid Sampler (DEAFS). The instrument is deployed at the footstep of the Montsegur edifice. The site, named Montserrat, expels hydrothermal fluid at 312°C which were collected beforehand by gas-tight fluid sampler manipulated and triggered by the hydraulic arm of the submarine vehicle (ROV Victor).
Several chemical analyses are performed aboard the research vessel: such as salinity and d20/20 by refractometer, pH and Eh by electrode (pH standard 4.01 and 7; Eh standard solution at -220mV), H2S and total S concentrations measured by electrode (AquaMS, amperometric method) at measured pH value.
Two i-button temperature sensors have been encapsulated in a titanium housing and attached on the instrument. The sensors have been sequenced for temperature measurement every 12h.
The DEAFS has performed a full sample collection sequence starting on the 23/06/2022 till the 25/04/2023.
Regional Node: EMSO-Azores, Lucky Strike Hydrothermal Field
Vent field : Montserrat at the base of Montsegur
Latitude : 37º17.2744’N
Longitude : 32º16.5461’W
Depth : 1699 m
DOI: 10.17882/97285
title: Microseismicity catalogs for Lucky Strike volcano summit region, Mid-Atlantic Ridge from the EMSO-Azores observatory, 2007-2019

description: This dataset contains microseismicity catalogs for Lucky Strike volcano summit region, Mid-Atlantic Ridge for seven deployments between 2007 and 2019 from a network of five ocean bottom seismometers deployed surrounding the volcano summit. The datafiles are in QUAKEML format. Instrument’s locations, their specifications and earthquake location methods are described in the metadata file.
DOI: 10.17882/97799
title: Spatio-temporal distribution for 4 demersal species of the Bay of Biscay based on VMS-logbooks data

description: These data are outputs of a spatio-temporal model inferring fish distribution. The maps are based on high-resolution catch data (VMS-logbook). They have a montly time resolution and a 0.05° spatial resolution. Four demersal species of the Bay of Biscay are available in the dataset: common sole (Solea solea), megrim (Lepidorhombus whiffiagonis), anglerfish (Lophius spp) and thornback ray (Raja clavata). Maps are provided for year 2008 to 2018 ; they were produced in the context of the MACCO project (https://www.macco.fr/en/accueil-english/), an Ifremer project that aims at proposing alternative management strategies for the mixed demersal fisheries of the Bay of Biscay.
DOI: 10.17882/99018
title: Marine and terrestrial species occurrence data for French Polynesia

description: The ongoing biodiversity crisis calls for a complete biodiversity inventory of marine and terrestrial ecosystems. The task is particularly challenging for fragmented island territories, where baseline biodiversity information is often difficult to procure. Using data from the Global Biodiversity Information Facility (GBIF), we curated the first biogeographic dataset for both marine and terrestrial animal species in French Polynesia. These clean dataset centralises information from different sources (museums, research institutions, citizen scientists) that can be used to evaluate species biodiversity information across an understudied region composed of 119 islands and atolls, that belongs to a marine biodiversity hotspot facing conservation challenges.
These dataset allowed investigated inherent sampling biases (taxonomic, spatial) and quantified island-specific accessibility biases. Overall, the biases quantified here challenge our ability to conduct biogeographic analyses that integrate the land-sea meta-ecosystem. Our database allows identifying taxa and sampling locations that require urgent attention, as well as comprehensively recorded species that can serve as indicators for environmental degradation. Explicitly acknowledging the inherent biases of biodiversity datasets is the first step towards a more comprehensive characterization of species diversity across fragmented territories. This information is crucial for guiding sound adaptive-management and conservation planning strategies.
Detailed results from these analyses will soon be disclosed in a peer-reviewed article.
DOI: 10.17882/99835
title: Waverider data at Graciosa Island, Azores, Portugal (2013 - 2023)

description: A Datawell Waverider buoy was deployed ~ 2.4 km east of Graciosa Island, Azores, Portugal, to monitor the ocean wave conditions. This dataset comprises historical wave measurements from 2013 to 2023, including wave height, wave period, wave direction, and sea surface temperature, with a resolution of 10 minutes.
DOI: 10.17882/101260
title: Advanced photonics for marine hydrokinetic structural health monitoring

description: The results of demonstration tests of a full-scale hydrokinetic turbine for river and tidal sites, are presented at the conclusion of the EU-funded CRIMSON project. The turbine features a 3-bladed crossflow, 9.0 m2 capture area rotor, representing one module of the ORPC RivGen© technology. A comprehensive matrix of operational trials was performed to characterize the turbine hydrodynamic performance and the efficiency of the power conversion system. An advanced blade structural monitoring system based on fiber-optics strain sensors was implemented and validated. The full-scale turbine tests were carried out at the hydrodynamics testing infrastructure at the Institute of Marine Engineering of the National Research Council (CNR-INM). This facility, among the largest of its kind globally, provided fully controlled and repeatable conditions that allowed to deliver a high-quality dataset on system performance and reliability, contributing to develope new knowledge for the enhancement of hydrokinetic turbine technology. The results allow ORPC to characterize the strain profile precisely over a rotation and to identify the maximum/minimum strain experienced by the foil for every flow condition tested.
DOI: 10.17882/102324
title: Collection of BGC-Argo single synthetic profile files with improved post processed Chlorophyll-A at the global scale

description: On January 9, 2024, (http://doi.org/10.17882/42182#107470), in the Argo data stream, very few Chlorophyll-A (Chla) profiles are available in Delayed Mode (DM). For SOCA2024 (Sauzede et al., 2016) development, we have applied a specific post-processing that acts similarly to a DM adjustment to improve Chla accuracy, but unlike DM data, data produced are not fully scrutinized. This post-processing procedure aims to apply three main corrections:
1) the median of the minima for dark correction;
2) the Non-Photochemical Quenching (NPQ) correction from Terrats et al. (2020), adapted from Xing et al. (2018), based on both Photosynthetically Available Radiation (PAR) and bbp measurements;
3) the physiological correction factor of fluorescence into Chla determined from the method of Xing et al. (2011), based on the vertical profile of Ed(490), the downwelling irradiance at 490 nm.
We applied this procedure to all the BGC-Argo fleet measuring fluorescence, including floats that are non-equipped with a radiometer. For those floats, radiometric parameters [(PAR and Ed(490)] were modelled thanks to the SOCA-light method (Renosh et al., 2023). SOCA-light needs a satellite ocean colour matchup with Argo profile to derive PAR and Ed(490) profiles. The availability of an ocean colour matchup is not an issue for the physiological correction factor as the median of all the slopes computed over the whole float lifetime is used allowing every float to have a slope estimation. However, for the NPQ correction that is applied on a profile-by-profile basis, when the ocean colour matchup is not available, the SOCA-light-derived climatological PAR profile was used to evaluate the depth till the NPQ should be corrected. This NPQ method correction is more accurate than the Xing et al. (2012) method used currently in A-mode that only takes into account an estimation of the mixed layer depth. All the QC flags were then processed in accordance with BGC-Argo standard protocols (Schmechtig et al., 2023).
Schematic representation of the post-processing of Chla data used for SOCA2024 training. The dashed rectangle corresponds to the correction applied using the median of data for the entire lifetime of float estimations. For instance, dark values are corrected by applying the median of all dark values computed across all profiles of the float's lifetime. The satellite indicates where a direct ocean colour matchup is required to obtain a value.
DOI: 10.17882/102675
title: ISIS-Fish Database: Life History and Spatial Distribution of Sole, Megrim, Anglerfish, Thornback ray, and Cuckoo ray Populations in the Bay of Biscay

description: In the context of the MACCO project (https://www.macco.fr/), we have developed an ISIS-Fish database with the objective of describing the spatial and monthly life cycle of 7 fish species of commercial interest in the mixed demersal fishery in the Bay of Biscay. In the case of megrim, cuckoo ray, thornback ray, anglerfish and sole, the population dynamics have been described in detail, both by age class and by global model. In addition, the distribution areas of these species according to their life stage have been mapped and included in the database. The settings of Hake and nephrops population dynamics are derived from a previous model (Seanoe https://doi.org/10.17882/86233). The database is accompanied by all the data and information necessary for the reproduction of the results and the assessment of the variability of the system. The biological parameters of each species are presented in summary species sheets with references, and in Excel files that contain all the variability observed in the literature and in the sea survey data.  Our mapping work allow an appreciation of the variability between months and years, as illustrated through commented exploratory reports. At the end, the ISIS-Fish database is accompanied by a simulation and a technical validation report, which demonstrate the efficacy of the modelling process as parameterized.
The data project includes 1) the ISIS-Fish database and all the ISIS-Fish files required to re-run the simulation of the 7 populations dynamics, 2) the species sheets for megrim, cuckoo ray, thornback ray, anglerfish and sole and 3) the R scripts to reproduce maps of the 5 species. All the data are reproductible using isis-fish-4.4.8.1 (isis-fish.org) and R 4.3.2.
WARNING : Due to excessively long file paths, decompression may fail on Windows. To prevent this, please extract the archive directly to a root folder (e.g., C:\).
DOI: 10.17882/104684
title: Examples of CytoSense flow cytometer data acquisition to build best practices in natural waters

description: This dataset illustrates the Best Practices in flow cytometry for studying phytoplankton, using CytoSense (CytoBuoy, NL) types of flow cytometers. The use of flow cytometry to collect datasets on phytoplankton functional groups is rapidly expanding worldwide with monitoring laboratories or deployments on scientific vessels and autonomous environmental monitoring platforms. Automation, coupled with enhanced autonomy, improves the resolution of the spatial and temporal distribution of phytoplankton.
Sharing these datasets with the scientific community—whether to improve the resolution of global phytoplankton distribution or to facilitate the intercomparison of environmental indicators among monitoring laboratories requires quality-controlled instruments and standardised data acquisition. Although CytoSense types of flow cytometers all operate on the principle of recording the optical pulse shapes of particles passing through a laser beam, their configurations vary in terms of laser wavelength and power, sample inlet, and dataset output format.
The characterisation of phytoplankton communities and their optical representation on cytograms has been standardised by experts, with resolution depending on the optimal configuration of the instrument in use. This dataset exemplifies the application of best practices for optimising the settings of pulse shape-recording CytoSense flow cytometers. We address key aspects such as particle counting limits, the coincidence phenomenon, trigger threshold and PMT voltage optimisation, and regular quality control procedures, illustrating these principles with datasets from two types of instruments. The primary goal is to establish a methodological framework that guides and supports the exploration and application of this type of flow cytometer, ultimately achieving reliable and optimal sample acquisition resolution.
DOI: 10.17882/104746
title: CC1000 observatory data

description: Long-term time series of daily averaged potential temperature (ºC) and current speed (m/s) at 1000 m depth in the Cap de Creus submarine canyon in the northwestern Mediterranean. Data has been used to validate the MedSea regional reanalysis provided by the EU Copernicus Marine Service in the manuscript by Fos et al., submitted to GRL, Solving dense shelf water cascading with ocean reanalysis: the Northwestern Mediterranean case study.
DOI: 10.17882/104799
title: CC750 observatory data

description: Time series of daily averaged potential temperature (ºC) and current speed (m/s) at 750 m depth in the Cap de Creus submarine canyon in the northwestern Mediterranean. Data has been used to validate the MedSea regional reanalysis provided by the EU Copernicus Marine Environment Monitoring Service (CMEMS) in the manuscript by Fos et al., submitted to GRL, Solving dense shelf water cascading with ocean reanalysis: the Northwestern Mediterranean case study.
DOI: 10.17882/104981
title: Fuzzy coded longevity dataset of European marine benthic invertebrates

description: The ICES Working Group on Fisheries Benthic Impact and Trade-offs (WGFBIT) has developed an assessment framework based on the life history trait longevity, to evaluate the benthic impact of fisheries at the regional scale. In order to apply this framework to the Mediterranean sea, several Mediterranean longevity databases were merged together with existing North-East Atlantic ones to develop a common database. Longevity was fuzzy coded into four longevity classes: &lt;1, 1-3, 3-10 and &gt;10 years. Both benthic mega and macrofauna organisms are included in this dataset. Further details about both the purpose and the methodology may be found in ICES (2022) and Cuyvers et al. (2023). The result of the final dataset merging is one dataset containing the fuzzy coded average longevity (and standard deviation) for 2264 taxa and for each, the number of databases used.
DOI: 10.17882/102640
title: A decade-long hydrographic mooring dataset near the Drygalski Ice Tongue, Terra Nova bay, Antarctica

description: We describe a decade-long timeseries of hydrographic mooring observations around the Drygalski Ice Tongue in southern Terra Nova Bay, Antarctica. Unique aspects of the data are that (i) the instruments were placed very close to the Ice Tongue due to its significant influence on the region's ocean and sea ice, and (ii) the upper sensors were positioned relatively close (&lt; 100 m) to the ocean surface compared to typical Antarctic moorings.  Starting in December 2014, the mooring array included three locations - the Drygalski Basin, the edge of the Crary Bank and, on the southern side of the ice tongue, in Geikie Inlet.  The instruments measure temperature, salinity, pressure, and current velocity.  The ``DITx'' mooring locations were chosen in order to support questions regarding the influence of the Drygalski Ice Tongue on regional ocean processes. The observations are relevant to water mass formation, glaciology and ice melt, sea ice production and decay, ice shelf cavity processes - as well as regional marine ecosystem processes.  The data from the instruments show the seasonal cycle along with interannual variability, as well as a range of singular events.