cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17882/77666
title: Model output of the effects of spatial variability on the exposure of fish to hypoxia

description: The 18 NetCDF files are the result of simulating the movement of individual fish within a high-resolution 3-D coupled hydrodynamic-water quality model (FVCOM-WASP) configured for the northern Gulf of Mexico to examine how spatial variability in DO concentrations would affect fish exposure to hypoxic and sublethal DO concentrations. Eight static snapshots (spatial maps) of DO were selected from a 10 day FVCOM-WASP simulation that showed a range of spatial variation (degree of clumpiness) in sublethal DO area from moderate total sublethal area (4 maps) to high total sublethal area (4 maps). An additional case of allowing DO to vary in time (dynamic DO) was also included. All simulations were for 10 days and were performed for 2-D (bottom layer only) maps. Fish movement was simulated every 15 minutes using one of three algorithms designed for avoiding low DO exposure and a default algorithm not dependent on DO conditions. Fish were assumed to have either good or poor avoidance competencies.
DOI: 10.17882/77522
title: Measurements and regressions of California Current prey size and hard parts and otolith morphometrics

description: Prey hard parts are used to reconstruct species composition and prey sizes from analyses of scats or stomachs of many marine predators. Measurements of prey hard parts are often closely related to prey size, allowing estimation of lengths and weights of prey consumed. In addition, otolith morphometrics, such as length, weight, and surface area, are related to otolith survival in predator digestive tracts and may thus help predict recovery rates in scats. Measurements were taken of prey hard part dimensions, additional morphometrics for otoliths, and/or prey size (length and weight) of reference specimens for 158 prey species found in the California Current Large Marine Ecosystem (CCLME), including 137 teleosts, twelve cephalopods, two batoids, one decapod, one myxinid, and one tunicate. Regression relationships of prey size to hard part measurements, among different prey hard part measurements (e.g., otolith length to width), and among different prey size measurements (e.g., weight to length) are provided for most species to facilitate application of these data to reconstruction of predator diets in the CCLME.
DOI: 10.17882/77400
title: Bottom Pressure, Current and Temperature in the South China Sea

description: Bottom pressure, current and temperature are observed by eleven current and pressure-recording inverted echo sounders in the South China Sea from 2016 to 2019.
DOI: 10.17882/77352
title: Using claws to compare reproduction, stress, and diet of female bearded and ringed seals in the Bering and Chukchi seas, Alaska, between 1953-1968 and 1998-2014.

description: Rapid climate warming is decreasing sea ice thickness, extent, and duration. Marine mammals such as bearded (Erignathus barbatus) and ringed (Pusa hispida) seals, which use sea ice for pupping, molting and resting, may be negatively affected. Claws from bearded and ringed seals store up to 14 and 12 years of sequential analyte data, respectively. These data can be used to compare reproduction, stress, and diet across decades. In this study, we compare progesterone, cortisol, and carbon and nitrogen stable isotopes in female bearded and ringed seals during 1953-1968 (pre-1968, a period prior to sea ice decline) to 1998-2014 (post-1998, a period during sea ice decline). When comparing these periods, bearded seals had statistically higher cortisol concentrations post-1998, and for both species δ13C was more negative post-1998, while progesterone and δ15N did not change. There was a positive relationship between progesterone and cortisol Z-scores for both species, except for ringed seals post-1998. There was a negative relationship between cortisol Z-scores and δ13C for bearded seals evident in post-1998 indicating that higher cortisol Z-scores are associated with more negative δ13C in bearded seals in recent years. This negative relationship between cortisol and δ13C in bearded seals suggests a shift to higher prey diversity, possibly due to changes in sea ice in the Pacific Arctic evident post 1998. Progesterone Z-scores corresponded to expected differences among non-pregnant, unimplanted, implanted, and post-partum individuals. Using these data, pregnancy history was determined for reproductive years for each individual female sampled which could allow for yearly pregnancy rates to be calculated given a large enough representative sample of the population. These results combine decades of observational studies with hormones and stable isotopes to infer changes in reproduction, stress, and diet, as well as the connection between these life history parameters.
DOI: 10.17882/77343
title: BC-DWR-E-2017, EMEC Datawell Waverider data at full scale wave test site at Billia Croo, Orkney, UK

description: Datawell Waverider data collected at southern part of full-scale wave test site at EMEC, in year 2017. Data was processed using Datawell W@ves21 software, no QC had been applied
DOI: 10.17882/77351
title: Physindien 2011 Seasoar measurements

description: Seasoar measurements collected during the Physindien 2011 experiment in the northwestern Indian Ocean.
DOI: 10.17882/77283
title: Abyssal warming trend in the Vema Chanel, South Atlantic

description: Temperature time series sampled by instruments moored near the bottom in the Vema Channel, South Atlantic.
DOI: 10.17882/77278
title: Impacts of desalination in the Arabian Gulf

description: Twin numerical simulations, one without and other with the injection of brine from desalination plants in specific locations around the Arabian Gulf.
DOI: 10.17882/77179
title: DATASET : Striped red mullet landing per unit of effort and environmental variables in the Bay of Biscay

description: ############# # Data description # ############# This dataset have been constructed and used for scientific purpose, available in the paper "Detecting the effects of inter-annual and seasonal changes of environmental factors on the the striped red mullet population in the Bay of Biscay" authored by Kermorvant C., Caill-Milly N., Sous D., Paradinas I., Lissardy M. and Liquet B. and published in Journal of Sea Research. This file is an extraction from the SACROIS fisheries database created by Ifremer (for more information see https://sextant.ifremer.fr/record/3e177f76-96b0-42e2-8007-62210767dc07/) and from the Copernicus database. Biochemestry comes from the product GLOBAL_ANALYSIS_FORECAST_BIO_001_028 (https://resources.marine.copernicus.eu/?option=com_csw&view=details&product_id=GLOBAL_ANALYSIS_FORECAST_BIO_001_028). Temperature and salinity comes from GLOBAL_ANALYSIS_FORECAST_PHY_001_024 product (https://resources.marine.copernicus.eu/?option=com_csw&view=details&product_id=GLOBAL_ANALYSIS_FORECAST_PHY_001_024). As fisheries landing per unit of effort is only available per ICES rectangle and by month, environmental data have been aggregated accordingly. ############### # Colomns description # ############### rectangle - The 6 ICES statistical rectangles used in the study. time_m - Time in months, from the beginning to the end of the study. annee = year mois = month (from 1 to 12) Poids = Weight of red mullet landed valeur = Temps_peche = fishing time Nb_sequence = number of fishing sequences Moy / Med / Var / StD Quartil_1 / Quartil_3 / min / max / CV / IQR = statistical descriptors of landing by rectangle and by month log_cpue = log of Med colomn mean_surface_s = mean of surface salinity by month and by rectangle median_surface_s = median of surface salinity by month and by rectangle mean_surface_t = mean of surface temperature by month and by rectangle median_surface_t = median of surface temperature by month and by rectangle si / zeu /po4 / pyc / o2/ nppv / no3 and nh4 mean and median concentration by rectangle and by month pc3 / pc2 / pc1 - projections of previous biochemestry variables on the three first axes of a PCA
DOI: 10.17882/77049
title: Bathymetry data from the R/V Ramon Margalef echosounder (2015)

description: In the framework of the R/V R. Margalef (Spanish Institute of Oceanography, IEO) field works and alongtrack navigation, a continuous echosounder was used in order to measure the depth along its trajectory. These data were mainly held around Spanish territorial waters. During the ship trajectory, the echosounder was receiving and integrating bathymetry data and GPS position. All the data recorded were checked for quality control in a semi-automatic standard procedure and stored in MEDAR/MEDATLAS-SDN format.
DOI: 10.17882/76983
title: Gridded carbon and nitrogen land-ocean fluxes north of 60°N from rivers and coastal erosion

description: Carbon and nitrogen input from coastal erosion and rivers north of 60°N. Riverine and coastal erosion input is resolved in space (1°x1° regular grid). Furthermore, riverine input is also resolved in time (monthly). The input is derived from observations. A full description of the extrapolation in time and space can be found in the associated publication. Riverine fluxes include dissolved inorganic carbon, dissolved organic carbon, dissolved inorganic nitrogen, dissolved organic nitrogen, dissolved organic and inorganic phosphorus, and silicate. Coastal erosion fluxes include total carbon and total nitrogen.
DOI: 10.17882/76793
title: Geochemical environments at the water-sediment interface in aquaculture ponds showing metal accumulation on shrimp gills

description: The gill is the organ by which many toxic metals are taken up by crustaceans. Fe2+ is known to precipitate at its surface, a phenomenon recently observed in some tropical aquaculture ponds. The present study uses a field approach to understand better the environmental conditions and ecological processes involved in this deposit. Because shrimp are exposed to reduced products originating from organic waste accumulated in the sediment, spatial variation in pH, redox potential and concentrations of dissolved metals in pore water were investigated in these ponds. Total organic carbon, acid volatile sulfide and pyrite were also analyzed in the solid phase.
DOI: 10.17882/76781
title: Data referring to “Element distribution in the root zone of ultramafic-hosted black smoker-like systems: Constraints from an Alpine analog”

description: In the attached file, LA-ICPMS data for sulfides (pyrrhotite and chalcopyrite) and oxide (magnetite) used in the article are given.
DOI: 10.17882/76780
title: Content of harbour seal (Phoca vitulina) and grey seal (Halichoerus grypus) scats in prey classified by functional groups (samples collected in the baie de Somme, France, from 2002 to 2019)

description: Harbour (Phoca vitulina) and grey seal (Halichoerus grypus) scat samples were collected in the baie de Somme, France, from 2002 to 2019 to identify the diet of both species. Diet analysis followed a procedure usually used for pinnipeds (e.g. Ridoux et al. 2007, https://doi.org/10.1017/S002531540705463X; Spitz et al. 2015, https://doi.org/10.1051/alr/2015001). Scats were washed in order to analyse their content in diagnostic hard prey remains (e.g. fish otoliths, fish bones and cephalopod beaks), and therefore to identify prey species consumed by seals. Key measurements on fish otoliths or cephalopod beaks were used to estimate body mass and length of prey consumed by seals (use of allometric relationships), and ultimately reconstruct seals’ diet content in mass (g). The content of seal scats are presented here in six functional groups of prey (small benthic flatfish with relative length &lt; 200 mm, large benthic flatfish with relative length ≥ 200 mm, benthic non-flatfish, demersal fish, pelagic fish and pelagic squids).
DOI: 10.17882/76751
title: Database of a shrimp pond bottom sediment study conducted in New Caledonia in 1996

description: The degradation of pond bottom with time is usually forwarded by shrimp farm managers in New Caledonia to explain a decrease in production, associated or not with a pathology. To evaluate this possiblity, a study was carried out in 1996 on the pond bottom of 12 earthen ponds aged 2 to 21 crops, and managed in a semi-intensvie way or intensive way. Samples were collected to assess the silting up in the ponds, measure the organic matter accumulation in the sediment and estimate the chemical and physico-chemical quality of the sediment.
DOI: 10.17882/76699
title: Density, biomass and some biological parameters of the greater forkbeard, Phycis blennoides caught along the Algerian coast

description: The data of Phycis blennoides comes from bottom-trawl surveys (2003-2004), caught between 170 and 779 m along the Algerian coast. Additionally, commercial fish samples of P. blennoides were obtained from 11 Algerian ports between 2013 and 2017. The dataset presented is composed of: - Biological parameters of commercial specimens across seasons: mean values of gonadosomatic index (GSI), hepatosomatic index (HSI) and somatic condition factor (K) for males (M) and females (F) (File: Commercialfisheries.xlsx). - Percentage of maturity of each gender collected from commercial specimens to build the length at first maturity (L50) (File: Commercialfisheries.xlsx ). - Density, biomass, meanweight (File: data.xlsx) across bathymetric strata and year with the R-code (ullagraph). - Density, biomass and meanweight of Phycis blennoides across longitude caught in 2003 (File: gam_03.csv) and 2004 (File: gam_04.csv). - The R-code (moigamm) to reproduce the generalized additive model (GAM) of density (ind/km²) and biomass (kg/km²) of P. blennoides with longitude (°) caught in 2003 and 2004.
DOI: 10.17882/76680
title: Ponman : An R package for BioArgo data analysis

description: Ponman is an R Language implementation developed to reduce the data-researcher barrier to promote the effective use of Bio-Argo floats. More than an R package it have comprehensive tool sets for the Bio-Argo, from data acquisition to plotting. Ponman is a user-friendly package for a regular R user with the aid of our detailed documentation. Oceanographers usually cluttered with enormous amount of data, for analysis and for downloading is a tedious job. Ponman for Bio-Argo could download the data direct to working directory according to your prior categories. Ponman prefers netcdf(.nc) files, which is a set of software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. Extraction of the data from .nc files to readable form is the first thing one could do by ponman.
DOI: 10.17882/76617
title: Malvinas Current 2015-2017: Mooring velocities

description: Current meter moorings in the Malvinas Current during 2015-2017 (paper under review)
DOI: 10.17882/76528
title: δ13C and δ15N stable isotope compositions of the whisker of 8 harbour seals (Phoca vitulina) and 10 grey seals (Halichoerus grypus) captured in the baie de Somme, France, in 2008 and 2012, for telemetry tracking

description: δ13C and δ15N stable isotopes values were measured along the whiskers of eight harbour seals (Phoca vitulina) and ten grey seals (Halichoerus grypus) captured in the baie de Somme, France, in 2008 and 2012, respectively, to be fitted with FastlocTM GPS/GSM tags (cf GPS data 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). The foraging areas posterior to seal captures are available for all harbour seals and seven on ten grey seals (Planque et al. 2020, https://doi.org/10.1007/s00227-019-3636-8). Seal whiskers provided a temporal integration of isotope compositions during the period of whisker growth, i.e. during months prior to sampling. All whisker segments were analysed with an elemental analyser (Flash 2000, Thermo Scientific, Milan, Italy) coupled to an isotope-ratio mass spectrometer (Delta V Plus with a Conflo IV interface, Thermo Scientific, Bremen, Germany). Isotope compositions are expressed with the usual δ notation in parts per thousands (‰) relative to Vienna PeeDee Belemnite Standard for δ13C and atmospheric N2 for δ15N. Based on replicate measurements of internal laboratory standards, analytical precision is &lt; 0.15 ‰ for both δ13C and δ15N.
DOI: 10.17882/76523
title: LANS-alpha turbulence modeling for coastal sea: an application to Alderney Race

description: This repository provides the source code based on MARS3D model code (Lazure and Dumas, 2008), with modifications for the LANS-alpha implementation (Hecht et al, 2008). Model outputs of an application on the Alderney Race are also provided. Simulations with and without LANS-alpha have been performed for two days (29-30 September 2017), with model configurations at two different horizontal resolutions (120 and 30 meters). Two cases have been considered for the vertical mixing parametrization, with the use of the k-epsilon turbulent closure and a constant vertical viscosity of 0.2 m2.s-1 .
DOI: 10.17882/76522
title: Experimental database of the seabed roughness effect on the hydrodynamical behavior of a submarine cable under current and wave conditions

description: Submarine cable behaviour is experimentally studied in order to evaluate on-bottom stability of cables placed on rocky seabed with high roughness and submitted to combined wave and strong current. For that purpose, hydrodynamic loads are measured on a fixed slender cylinder closely fixed to a horizontal plate, with or without large roughness. A specified set of load cases (forced oscillations, current, forced oscillation + current) is considered to assess the hydrodynamic loads acting on the cylinder placed near a wall for varying gap-to-diameter ratios. The roughness effects on cylinder loads and on the flow are studied in detail. The result show a significant difference between rough and smooth bottom configurations. Indeed, the loads measurements and hydrodynamic coefficients are significantly lower with the presence of a rough plate near the cylinder. Especially for drag and oscillatory drag coefficients, however the inertia coefficient presents less differences.
DOI: 10.17882/76521
title: BioGeoChemical-Argo float data complemented with ocean-colour satellite matchups of variables related to the detection of coccolithophore blooms

description: This dataset contains bio-optical measurements from BioGeoChemical-Argo (BGC-Argo) profiling floats complemented with ocean-colour satellite matchups of variables related to the detection of coccolithophore blooms dominated by Emiliania huxleyi. BGC-Argo float data cover the global ocean from November 2012 to December 2018 and include measurements of the particulate backscattering coefficient (BBP_float in m-1), the concentration of Chlorophyll-a (CHLA_float in mg m-3), and the particulate beam attenuation coefficient (CP_float in m-1) with data processing and quality control described in the manuscript entitled “Detection of coccolithophore blooms with BioGeoChemical-Argo floats” submitted to Geophysical Research Letters. The data represent near-surface ocean conditions, calculated as the average value in the top 15m of the water column. Daily ocean-colour satellite data were downloaded from the GlobColour project (ftp://ftp.hermes.acri.fr) with a spatial resolution of 4km and matched with every BGC-Argo float observation by using a 5x5 pixel box and a 9-day temporal window. For each float observation, we extracted concurrent satellite data of the concentrations of Particulate Inorganic Carbon (PIC_sat in mmol m-3) and Particulate Organic Carbon (POC_sat in mmol m-3), from which we derived the proportion of PIC_sat to the total particulate carbon concentration (PIC_POC_sat in % and defined as PIC_sat / [PIC_sat+POC_sat]). Coccolithophore bloom periods were identified using annual times series of PIC_sat and PIC_POC_sat at each profile location as described in the submitted manuscript, and the column “inside_coccolithophore_bloom” reports the float observations occurring inside such blooms.
DOI: 10.17882/76491
title: Airborne laser scanning derived sea surface height datasets in the Gulf of Finland (10.05.2018)

description: A marine airborne laser scanning (ALS) survey was performed on 10.05.2018 in the Gulf of Finland. An inverse distance weighted interpolation was employed to reconstruct the raw instantaneous sea surface heights as 1×1 m resolution grids, representing the high-frequency component. Alternatively, a 2D moving average low-pass filter was employed to determine the low-frequency component. Further details of the data processing can be found in the publication: https://doi.org/10.1080/22797254.2021.1981156.
DOI: 10.17882/76445
title: Bathymetry data from the R/V Ramon Margalef echosounder (2014)

description: In the framework of the R/V R. Margalef (Spanish Institute of Oceanography, IEO) field works and alongtrack navigation, a continuous echosounder was used in order to measure the depth along its trajectory. These data were mainly held around Spanish territorial waters. During the ship trajectory, the echosounder was receiving and integrating bathymetry data and GPS position. All the data recorded were checked for quality control in a semi-automatic standard procedure and stored in MEDAR/MEDATLAS-SDN format.
DOI: 10.17882/76439
title: Cape Terawhiti ADCP Dataset

description: Cape Terawhiti ADCP Dataset Original focus was to capture ocean currents over a spring neap cycle in eastern Cook Strait, a location of strong tidal flows. Location - Depth 34 m of water off Cape Terawhiti, Cook Strait, New Zealand. - 41o 16.689 S 174o 35.857 E Instrument - Recording Doppler Current Profiler (RDCP, serial number 0200) manufactured by AADI (Aanderaa) Norway. Setup - Upward looking - 2 m bins at 1 m intervals - 300 sec interval - 100 pings - Ping interval 740 mSec - 25% duty cycle Deployment - declination :+22 - start_time :2010/08/25 08:45:00 - stop_time :2010/10/07 13:35:00 - utc_offset :+12 Header - printf,luout,'Experiment: Cape Terawhiti ADCP Dataset 2010' - printf,luout,'Location: 41o 16.689 S 174o 35.857 E' - printf,luout,'Water Depth 34 m' - printf,luout,'Cook Strait New Zealand' - printf,luout,'collected by NZ NIWA' - printf,luout,'Craig Stevens & Craig Stewart & Brett Grant' - printf,luout,'SN=0200 RDCP AADI ADCP' - printf,luout,'Time UTC' - printf,luout,'Data are in pairs of lines (ie 2 lines for every time step)' - printf,luout,'time and velocity magnitude cm/s' - printf,luout,'time and direction is true north deg' - printf,luout,'compass corrected for declination +22o and frame effects' - printf,luout,'top line is height above bed'
DOI: 10.17882/76433
title: Review of global distribution of dinophysis shellfish toxin (DST) measurements in marine animals, in Dinophysis (culture and field sampling) and in SPATT

description: The table represents the global and regional distribution of DST measurements in marine animals, in Dinophysis cells from field sampling and in culture, as well as in the seawater (using solid phase adsorption toxin tracking, SPATT). The data encompass the locations, species and toxin profiles of Dinophysis spp. or taxa when marine animals were analyzed. Data were obtained and updated from Lee et al. (1989), Blanco et al. (2005), Reguera and Pizarro (2008), Reguera et al. (2012a) and Reguera et al. (2014). Scientific publications on Dinophysis occurrences but without associated toxin profiles or quantifications were not included. Toxin content of Dinophysis spp. were reported in a per cell basis (pg cell-1) or in few cases in per volume (ng mL-1), when the concentration in a per cell basis was not available in the publications, while in marine animals, presence or absence of the toxins were shown. Marine animals are grouped by taxa (e.g. C. gigas and C. virginica = oysters). This work represents 461 records (from 1978 to July 2020) from 163 scientific publications, conference papers, reports and conference abstracts.