cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17882/80771
title: Brazilian PIRATA cruises: S-ADCP data

description: In order to understand the tropical Atlantic ocean dynamics and its role on the climate, the Prediction and Research Moored Array in the Tropical Atlantic (PIRATA) oceanographic program undertakes each year the maintenance of its buoys dispatched in the whole tropical basin (Bourlès et al., 2008; 2019). Brazil is in charge of the maintenance of the buoys at the western boundary and has started cruises to maintain the buoys and collect data since 1998. From 2001, the research vessels used for the purpose were equipped by the Ship-mounted Acoustic Doppler Current Profilers (S-ADCP), which measure the zonal and meridional components of the currents along the ship route. The raw data (2 min Short Term Averaged files - STA, and Long Term Averaged files - LTA) from these acoustic profilers have been processed here with CASCADE (Chaîne Automatisée de Suivi des Courantomètres Acoustiques Doppler Embarqués) software (Kermabon et al., 2018) and made available.
DOI: 10.17882/80770
title: In-situ environmental amelioration of biofloc supported Litopenaeus vannamei culture in West Bengal, India

description: In-situ environmental amelioration potential of biofloc media mediated through the removal of nitrogenous metabolites, reduction of pathogenic Vibrio with concurrent increase in Bacillus community and reduction of feed was studied in white Litopenaeus vannamei culture. Three treatments viz. biofloc without neem+ commercial feed (B), biofloc with neem +commercial feed (NB), only commercial feed without biofloc (F)and, one control (C) withno biofloc and no feed in triplicate was employed with a stocking density of 60 PL-20 m3 in outdoor earthen ponds (1000 m3). Two biofloc media (C: N = 15-10:1) with and without neem leave extract were applied with reduction of supplementary feed from 50% to100%. Final body weight in neem based biofloc media was higher than the others. with high survival (87%). Superiority of biofloc system over the feed based system was established as live weight gain was higher by 28.48-137 % with reduced FCR (7.60% - 8.18%) in the former. Ffeed cost was reduced both in B (8.1 %) and NB (8.77%) compared to feed based culture system (F). Biofloc system supported cumulative increase of Bacillus population with concomitant reduction of luminous Vibrio population.
DOI: 10.17882/80577
title: Importance of coarse sedimentation events for maintaining back-barrier salt-marshes resilience to sea-level rise

description: An improved understanding of the resilience capacity of salt-marsh environments, which are recognized as one of the most vulnerable yet valuable coastal morpho-sedimentary systems is important for enhancing adaptation to ongoing and future sea-level rise. The aim of this study is to provide a long-term (multi-centennial) context to the capacity of response of saltmarsh environments to relative sea-level rise and extreme wave events by reconstructing the accretion histories of two microtidal back-barrier (one aggradational and one transgressive) saltmarshes in the Bay of Gaspé (Québec, Eastern Canada) over the last centuries. Particular emphasis is put on coarse minerogenic sedimentation and the role it played in the response of the two marshes to relative sea-level changes. To do so, lithostratigraphic, geochronological, and geochemical analyses are carried out on sedimentary cores taken in the back-barrier marsh areas. The accretion histories and the chronology of coarse deposition upon the marshes are reconstructed and yield the following two main results: (1) Coherent yet contrasting records of coarse sedimentation histories are obtained for the two sites, which relate to the distinct configurations and functioning of the fronting barrier systems. The coarse sedimentation time-series of both marshes carry pluri-decadal periodicities typical of atmospheric and intra-oceanic modes of variability, as well as periodicities of 18.0 to 18.5 years, which are interpreted as the expressions of the influence of the 18.6-year nodal tidal cycle. (2) We observe intra- and inter-site variations in the accretionary behavior of the two systems as well as in their respective histories of coarse minerogenic deposition. We show that coarse sedimentation at the surface of the two marshes has been crucial for maintaining accretion rates both in minerogenic and organogenic environments, and thus for allowing saltmarshes to build a resilience capacity in a regime of relative sea-level rise.
DOI: 10.17882/80564
title: Structural testing and FEA dataset for a composite turbine blade

description: This dataset contains the results from the structural testing and finite element analysis (FEA) of a 13m turbine blade, which has been manufactured from glass fibre reinforced powder epoxy. The dataset includes the results from dynamic and static testing of the blade. The results from the dynamic testing includes the natural frequencies and mass of the blade. The results from the static testing display the deflection, and associated strains, in both the flapwise and edgewise directions, where the load was applied in increments of 25% of the maximum design load. The associated paper that uses some of, and explains further, the data is available at : Finnegan William, Jiang Yadong, Dumergue Nicolas, Davies Peter, Goggins Jamie (2021). Investigation and Validation of Numerical Models for Composite Wind Turbine Blades. Journal of Marine Science and Engineering, 9(5), 525-. https://doi.org/10.3390/jmse9050525
DOI: 10.17882/80498
title: New scale analyses reveal centenarian coelacanths Latimeria chalumnae - Datasets and R scripts

description: Datasets and R scripts used in the publication « New scale analyses reveal centenarian coelacanths Latimeria chalumnae”. Datasets include catch information (identifier, catch year and month), biometric (total length, sex, weight) and ageing (circuli and macro-circuli numbers and corresponding marginal increments) data for the 27 coelacanth specimens used in this study, the extraction of Von Bertalanffy growth parameters (rate coefficient and asymptotic total length) and of life-history traits (age at maturity, maximum longevity, spawning frequency) in marine fish from Fishbase (June 2020). R scripts describe (i) the marginal increment analysis, i.e. the analysis of the periodicity of circuli and macro-circuli formation, on the African coelacanth scales to validate ageing based on circuli, (ii) the body growth patterns of the African coelacanth according to the different ageing hypotheses and the fitting of the Von Bertalanffy, Gompertz and logistic growth models to the corresponding length-at-age data, (iii) the comparison of the African coelacanth’s growth characteristics obtained with other marine fish through auximetric analysis and (iv) the location the African coelacanth along the slow-fast life-history continuum in marine fish.
DOI: 10.17882/80453
title: Fatty acids data for dorsal muscle of the Atlantic mackerel Scomber scombrus in the first hours following death and after cooking

description: The following dataset contains fatty acids concentrations (in mg.g-1) and moisture data for 15 Atlantic mackerel individuals collected by hand line in the Baie de Douarnenez, France on July 26th 2020. Measurements were done at T0 (immediately after death) and repeated on the same individuals after storage at two temperatures (2-4°C or 18-20°C) for 6, 12 and 24 hours following death, and after cooking (grill or steam). Seventy-five measurements are therefore provided. Analytical details can be found in “Sardenne Fany, Puccinelli Eleonora, Vagner Marie, Pecquerie Laure, Bideau Antoine, Le Grand Fabienne, Soudant Philippe (2021). Post-mortem storage conditions and cooking methods affect long-chain omega-3 fatty acid content in Atlantic mackerel (Scomber scombrus). Food Chemistry, 359, 129828 (6p.). https://doi.org/10.1016/j.foodchem.2021.129828"
DOI: 10.17882/80341
title: Mean Significant Wave Height, Amplitude of the its Annual Cycle and Mean Wave Energy Flux from Jason-1 and -2 (2001-2016)

description: This dataset contains the results of the accepted Nature Communications manuscript entitled "Global coastal attenuation of wind-waves observed with radar altimetry", with the following abstract: Coastal studies of wave climate and evaluations of wave energy resources are mainly regional and based on the use of computationally very expensive models or a network of in-situ data. Considering the significant wave height, satellite radar altimetry provides an established global and relatively long-term source, whose coastal data are nevertheless typically flagged as unreliable within 30 km of the coast. This study exploits the reprocessing of the radar altimetry signals with a dedicated fitting algorithm to retrieve several years of significant wave height records in the coastal zone. We show significant variations in annual cycle amplitudes and mean state in the last 30 km from the coastline compared to offshore, in areas which were up to now not observable with standard radar altimetry. Consequently, a decrease of the average wave energy flux is observed. Globally, we found that the mean significant wave height at 3 km off the coast is on average 22% smaller than offshore, the amplitude of the annual cycle is reduced on average by 14% and the mean energy flux loses 38% of its offshore value.
DOI: 10.17882/80337
title: Individual traits and population parameters of a rocky-shore mussel population

description: The present dataset includes diverse information on individual traits and population parameters from a mussel population in a bathymetric gradient and with monthly frequency (from March 2019 to February 2020) from two rocky shores at Le Petit Minou, France (lon: -4.615860; lat: 48.339118). Each of the two shores was at the East and West side of the Le Petit Minou beach. Sampling was carried out on a triplicate quadrat from each rocky shore. The present dataset includes all the raw data from these quadrat samples as well as derived information. “Length_data.csv” table includes: 36670 measures of shell length from all living individuals in each sample “Biometry_data.csv” includes the biometric measures from 10 individuals from each sample (n total = 720 individuals), including: total weight, flesh wet weight, dry flesh weight, shell wet weight, shell dry weight, shell length, and condition index (Flesh Dry Weight / Shell Length3) “Samples_summary.csv” includes: the geographic coordinates, bathymetric position, eastness and northness orientation of quadrats and the raw data including the number of counted individuals, number of recruits (shell length &lt; 1.07mm), number of non-recruits (shell length &gt;1.07mm), observed covered area, proportion of covered area inside the quadrat, and crowding index (observed covered area/sum of individuals basal area) and the population parameters expressed per meter square of a fully covered area, including total density of individuals, density of non-recruits, density of recruits, median length of individuals, median length of non-recruits individuals, maximum length of individuals, total biomass. All individual traits and population parameters are associated with their corresponding shore, date and replica, which is also represented by a Sample_ID, e.g., 2019.3ER1, where 2019 is the year, 3 is the month (March), E is the shore (East) and R1 is the replica number (1 out of 3).
DOI: 10.17882/80285
title: Hydrodynamic and salmon smolt telemetry at the Head of Old River, California

description: Juvenile Chinook salmon were tagged with acoustic transmitters and tracked by a hydrophone array at a tidal river junction. Processed location data is compiled into tracks after quality assurance, and merged with hydrodynamic data derived from a three-dimensional hydrodynamic model. The data collection includes processed tracks with colocated hydrodynamic velocity data, observed hydrodynamic velocity at select lateral transects, and modeled hydrodynamic velocity at matching transects.
DOI: 10.17882/80130
title: High frequency monitoring of water quality in the North-Aquitanian estuaries: data from the Portets station

description: The French Atlantic coast hosts numerous macrotidal and turbid estuaries that flow into the Bay of Biscay that are natural corridors for migratory fishes. The two best known are those of the Gironde and the Loire. However, there are also a dozen estuaries set geographically among them, of a smaller scale. The physico-chemical quality of estuarine waters is a necessary support element for biological life and determines the distribution of species, on which many ecosystem services (e.g. professional or recreational fishing) depend. With rising temperatures and water levels, declining precipitation and population growth projected for the New Aquitaine region by 2030, the question of how the quality and ecological status of estuarine waters will evolve becomes increasingly critical. The MAGEST (Mesures Automatisées pour l’observation et la Gestion des ESTuaires nord aquitains) high-frequency monitoring of key physico-chemical parameters was first developed in the Gironde estuary in 2004 ; the Seudre and Charente estuaries were instrumented late 2020. First based on real-time automated systems, MAGEST is now equipped by autonomous multiparameter sensors. Depending of the stations, an optode is also deployed to secure dissolved oxygen measurement. By the end of 2020, MAGEST had 12 instrumented sites. Portets is a measuring station located in the upper Gironde estuary (Garonne subestuary, about 20 km upstream of the Bordeaux metropolis.
DOI: 10.17882/80022
title: Spatiotemporal drivers of hydrochemical ecosystem calcification and organic productivity: The meta-data

description: Long-term coral reef resilience to multiple stressors depends on their ability to maintain positive calcification rates. Estimates of coral ecosystem calcification and organic productivity provide insight into the environmental drivers and temporal changes in reef condition. Here, we analyse global spatiotemporal trends and drivers of coral reef calcification using a meta-analysis of ecosystem-scale case studies. A linear mixed-effects regression model was used to test whether ecosystem-scale calcification is related to seasonality, methodology, calcifier cover, year, depth, wave action, latitude, duration of data collection, coral reef state, Ωar, temperature, and organic productivity. Global ecosystem calcification estimated from changes in seawater carbonate chemistry was driven primarily by depth and benthic calcifier cover. Current and future declines in coral cover will significantly affect the global reef carbonate budget, even before considering the effects of sub-lethal stressors on calcification rates. Repeatedly-studied reefs exhibited declining calcification of 4.3% ± 1.9% per year (1.8 ± 0.5 mmol m-2 d-1 yr-1), and increasing organic productivity at 3.0 ± 0.8 mmol m-2 d-1 per year since 1970. Therefore, coral reef ecosystems are experiencing a shift in their essential metabolic processes of calcification and photosynthesis and could become net dissolving worldwide around 2054.
DOI: 10.17882/80016
title: Dive data obtained from telemetry tracking of ten harbour seals (Phoca vitulina) and twelve grey seals (Halichoerus grypus), captured in the Baie de Somme, France, in 2008 and 2012, and fitted with GPS/GSM tags

description: Dive data were obtained from telemetry studies performed on ten harbour seals (Phoca vitulina) and twelve grey seals (Halichoerus grypus) captured in the Baie de Somme, France, in 2008 and 2012, respectively. These seal individuals were fitted with Fastloc GPS/GSM tags, developed by the Sea Mammal Research Unit (University of StAndrews, UK). These tags include a Fastloc™ GPS, a GSM modem (for data transmission), and wet-dry, pressure and temperature sensors, as well a microprocessor (for on-board data processing) (McConnell et al., 2004). A dive event was registered by the tag when the seal reached depths exceeding 1.5 m, and different parameters were thus measured: start date and time, maximum depth, dive duration, post-dive surface duration, the “percent area” (to identify dive shape, cf. TAD index by Fedak et al., 2001), and nine intermediate depth points (each 10% of the dive duration). GPS locations were obtained (around every 20 minutes) when the seal was at the surface at sea, and the location of each dive data was therefore spatially interpolated from these GPS locations. GPS data are already available on http://seamap.env.duke.edu/dataset/2030 for harbour seals and on http://seamap.env.duke.edu/dataset/2026 for grey seals seals. Dive data can provide essential information on the behaviour of seals, including foraging, and can therefore be used to identify foraging areas (as already done on part of these data, cf. Planque et al., 2020). For information, the δ13C and δ15N stable isotopes were measured along the whiskers of almost all of these seal individuals, and the data are already available on SEANOE (https://doi.org/10.17882/76528).
DOI: 10.17882/79823
title: An 18S V4 rDNA metabarcoding dataset of protist diversity in the Atlantic inflow to the Arctic Ocean, through the year and down to 1000 m depth.

description: Arctic marine protist communities have been understudied due to challenging sampling conditions, in particular during winter and in deep waters. The aim of this study was to improve our knowledge on Arctic protist diversity through the year, both in the epipelagic (&lt; 200 m depth) and mesopelagic zones (200-1000 m depth). Sampling campaigns were performed in 2014, during five different months, to capture the various phases of the Arctic primary production: January (winter), March (pre-bloom), May (spring bloom), August (post-bloom) and November (early winter). The cruises were undertaken west and north of the Svalbard archipelago, where warmer Atlantic waters from the West Spitsbergen Current meets cold Arctic waters from the Arctic Ocean. From each cruise, station, and depth, 50 L of sea water were collected and the plankton was size-fractionated by serial filtration into four size fractions between 0.45-200 µm, representing the picoplankton, nanoplankton and microplankton. In addition vertical net hauls were taken from 50 m depth to the surface at selected stations. From the plankton samples DNA was extracted, the V4 region of the 18S rRNA-gene was amplified by PCR with universal eukaryote primers and the amplicons were sequenced by Illumina high-throughput sequencing. Sequences were clustered into Amplicon Sequence Variants (ASVs), representing protist genotypes, with the dada2 pipeline. Taxonomic classification was made against the curated Protist Ribosomal Reference database (PR2). Here we present the ASV table, metadata for the sequenced size-fractionated plankton samples, and environmental data from the corresponding water masses. Fastq-files with raw reads are available from the European Nucleotide Archive, under project accession number PRJEB40133.
DOI: 10.17882/79782
title: Speciation Contaminant modelling : module MOMO

description: "MOMO" software is a zero dimensional model that simulates the different processes affecting the speciation and the behavior of chemical contaminants in an homogeneous water reservoir. It was developed within the framework of the "Contaminants cycle and modeling" project of the BE department ("Biogeochemistry and Ecotoxicology") of Ifremer between 2000 and 2010. It was intended for work studying metallic and organic contaminants speciation in marine and estuarine waters. It can also be used to estimate parameters when experimental measurements are available and can be reproduced by the model. The model's assumptions, its design and its documentation are presented in the Thouvenin & Gonzalez report (2021). The program and data are stored in directories, including the FORTRAN software and the model data files, with examples of parameter files to describe the contaminants and of data files to describe the conditions of the environment.
DOI: 10.17882/79673
title: North SEAL: Gridded Sea Level Anomalies and Trends for the North Sea from Multi-Mission Satellite Altimetry

description: This dataset contains gridded Sea Level Anomalies (SLA) for the North Sea, computed from multi-mission satellite altimetry at DGFI-TUM. SLA are provided in monthly temporal resolution between May-1995 and May-2019. The high-frequency cross-calibrated SLA observations are gridded by a least-squares approach on an unstructured triangular mesh with a spatial resolution of 6 – 8 km. The grid nodes cover the investigation area from 4°W to 12.2°E and from 50°N to 61°N. The data is provided as Format 4 Classic NetCDF files and contains beside the SLA values, uncertainty and auxiliary information per grid node. Moreover, a Mean Sea Surface (namely the DTU15MSS (Andersen et. al, 2016)) is included and enables a transformation from SLA to Sea Surface Heights (SSH). The SLA estimates are corrected using latest atmospheric and geophysical corrections and by the application of the ALES retracker (Passaro et al., 2014) in the case of conventional altimetry missions and by ALES+SAR (Passaro et al., 2020) in the case of Delay-Doppler altimeter observations. More information regarding the corrections and pre-processing of the along-track SLA measurements are provided in NorthSEAL: A new Dataset of Sea Level Changes in the North Sea from Satellite Altimetry In addition to SLA, information concerning sea level (SL) trends and the annual cycle are provided for each grid node. For the investigation period, absolute SL trends range in the order of 1.5 to 3.5 mm/year, with a basin average trend of 2.61 +- 0.95 mm/year. The mean value of the correlations of the data with tide gauge (TG) observations is 0.85, which exceeds correlations based on currently available global gridded SL dataset. The accuracy of the linear trends - assessed by a comparison with Vertical Land Motion (VLM) corrected TG observations - is in the same order of magnitude as similar products: RMSE of 1.4 mm/year when correcting with GPS VLM estimates; RMSE of 1.15 mm/year when correcting with GIA VLM. More information regarding uncertainty information can be found in the related publication.