cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17882/73002
title: UVP5 data sorted with EcoTaxa and MorphoCluster

description: Here, we provide plankton image data that was sorted with the web applications EcoTaxa and MorphoCluster. The data set was used for image classification tasks as described in Schröder et. al (in preparation) and does not include any geospatial or temporal meta-data. Plankton was imaged using the Underwater Vision Profiler 5 (Picheral et al. 2010) in various regions of the world's oceans between 2012-10-24 and 2017-08-08. This data publication consists of an archive containing "training.csv" (list of 392k training images for classification, validated using EcoTaxa), "validation.csv" (list of 196k validation images for classification, validated using EcoTaxa), "unlabeld.csv" (list of 1M unlabeled images), "morphocluster.csv" (1.2M objects validated using MorphoCluster, a subset of "unlabeled.csv" and "validation.csv") and the image files themselves. The CSV files each contain the columns "object_id" (a unique ID), "image_fn" (the relative filename), and "label" (the assigned name). The training and validation sets were sorted into 65 classes using the web application EcoTaxa (http://ecotaxa.obs-vlfr.fr). This data shows a severe class imbalance; the 10% most populated classes contain more than 80% of the objects and the class sizes span four orders of magnitude. The validation set and a set of additional 1M unlabeled images were sorted during the first trial of MorphoCluster (https://github.com/morphocluster). The images in this data set were sampled during RV Meteor cruises M92, M93, M96, M97, M98, M105, M106, M107, M108, M116, M119, M121, M130, M131, M135, M136, M137 and M138, during RV Maria S Merian cruises MSM22, MSM23, MSM40 and MSM49, during the RV Polarstern cruise PS88b and during the FLUXES1 experiment with RV Sarmiento de Gamboa. The following people have contributed to the sorting of the image data on EcoTaxa: Rainer Kiko, Tristan Biard, Benjamin Blanc, Svenja Christiansen, Justine Courboules, Charlotte Eich, Jannik Faustmann, Christine Gawinski, Augustin Lafond, Aakash Panchal, Marc Picheral, Akanksha Singh and Helena Hauss In Schröder et al. (in preparation), the training set serves as a source for knowledge transfer in the training of the feature extractor. The classification using MorphoCluster was conducted by Rainer Kiko. Used labels are operational and not yet matched to respective EcoTaxa classes.
DOI: 10.17882/72994
title: Inverse estuaries of the Casamance and Saloum Rivers : salinity measurement

description: Two series of salinity measurement data 1- Five CTD sensors located in the Casamance estuary implemented gradually from 2014 to 2017 The equipment is composed of Decagon CTD 10 sensors connected with Decagon Em50 data logger 2- Forty measurement points documented twice a year at the end of rainy season and at the end of dry season Salinity is measured with: - a conductimeter Hanna 98129 for values less than 2 mS/cm - a conductimeter Hanna 98130 for values between 2 to 20 mS/cm - a refractometer PCE 0100 for values above 20 mS/cm Fig1 : The Decagon CTD sensor Fig 2 : The Decagon Em50 data logger Fig 3 : Three generations of water level sensors Fig 4 : The Baila CTD station Fig 5 : Measurement with the Hanna 98130 conductimeter Fig 6 : Measurement with the PCE 0100 refractometer
DOI: 10.17882/72890
title: Early diagenesis in sediments of a Mediterranean lagoon (Venice lagoon, Italy) and its relationship to hypoxia

description: The interaction between sediment biogeochemistry and hypoxia has been largely investigated in ecosystems periodically subjected to the presence of large anoxic zones, and in landlocked stratified environments. Less attention has been provided to shallow water systems in which stratification is absent, and the wind is expected to have a major role in water mixing and reoxygenation. The present work focuses on sediments of a shallow water lagoon, located in a densely populated area subjected to multiple stressors (Venice lagoon, Italy), with the goal of increasing the understanding of the links between diagenetic processes occurring in sediments and the dynamics of dissolved oxygen. Sediment data were collected over three consecutive years, from 2015 to 2017, during the spring-summer season, at a total of 5 different stations, located in different areas of the lagoon. Measured variables included sediment porosity, grain size and solids composition, porewater microprofiles of O2, pH and H2S, porewater profiles, including DIC, Alk, NH4, NO3, dissolved Fe. In addition, long-term water quality monitoring data (years 2005-2017) collected by the Venice Water Authority (Magistrato alle Acque) were analyzed, in order to assess the tendency of the sampled areas to undergo hypoxia. The latter analysis, which was performed at 4 monitoring stations, pointed out that the lagoon waters experience low oxygen concentrations in summer months, with median values below 50% saturation, and that consecutive days with minimum saturation values below 25% (55 mmol/l) can occur, and last one week or more. The inter-annual consistency of data collected by sediment coring was first performed and, subsequently, sampled stations were divided in two categories based on their diagenetic intensity. At intense and moderate diagenesis stations the average DIC flux, estimated trough a simple steady-state model (profile) were respectively of 2.8 and 1.0 mmol m-2 d-1, SO4 fluxes of 1.6 and 0.4 mmol m-2 d-1, while diffusive oxygen uptake fluxes, calculated from the sediment microprofiles data, were of 28.5 and 17.5 mmol m-2 d-1. At the organic-rich stations, dissolved sulfide accumulated in porewaters very near the sediment-water interface, reaching values of 0.7 mM at 10 cm. Considering the typical physico-chemical summer conditions at these stations, we estimated the time required for a complete O2 depletion of the water column by sediment oxygen demand in absence of mixing, which would be comprised between 4 and 14 days, respectively at intense and moderate diagenesis stations. This estimation highlights that changes in regional climate conditions of these systems such as the increase in the frequency of summer heat waves, currently experienced in the Mediterranean region, could extend the duration and increase the severity of hypoxic events. In this respect, an aspect of relevance concerns the consequences that hypoxia can have on water bodies through release of sulfide.
DOI: 10.17882/72614
title: Simulated Pre-Industrial Continental Shelf NEP and CO2 Fluxes by HAMOCC with Enhanced Coastal Ocean Representation

description: We provide coastal ocean Net Ecosystem Production (NEP) and air-sea CO2 fluxes originating from HAMOCC model realizations for pre-industrial and historical (1800-2015) conditions on a TP04 grid (around 4 degrees spatial resolution), in which the model was altered to offer an improved representation of the coastal ocean. This was done in the model by explicitely considering riverine fluxes of biogeochemical compounds to the ocean and ameliorating dynamics of organic matter in the coastal ocean. The data of the model output covers biogeochemical metrics (NEP and air-sea CO2 flux) from the last 100 years of a 2000-year pre-industrial simulations (pi), as well as the air-sea CO2 flux of a historical simulation over 1800-2015 (hist), in which atmospheric CO2 levels were augmented progressively to present-day conditions.
DOI: 10.17882/72407
title: Sailing on the bloom in north-east atlantic in spring 2019 for collecting sea surface parameters

description: iodysséus (https://www.iodysseus.org) is an offshore sailing ship equiped as an oceanographic platform. Data have been collected during 3 legs (around 3500 nautical miles in total) during the spring 2019. The navigation zones are on biological phenomena, corresponding to the zones where the CO2 varies widely, thus measurements taken provide extra information to help restrict seasonal variability and the seasonal CO2 cycle (and help to calculate the rate of ocean acidification). (During the spring, the partial pressure of CO2 decreases during bloom phenomenon because planktonic microorganisms pump CO2 for their growth). The physico-chemical parameters of the surface water have been continuously measured thanks to an Ocean Pack : temperature, salinity, dissolved oxygen, chlorophyll-a concentration, and partial CO2 pressure (pCO2). (This device was developed and adapted for racing yachts. Both compact and light, it consumes very little energy. One of its many advantages is that it can still operate at speeds above 15 knots. It shows that modern oceanography is evolving towards more flexible models). leg 1: from 19-04-21 to 19-04-24 leg 2: from 19-05-13 to 19-05-21 leg 3: from 30-05 to mid june Three maps below: partiel pressure of CO2 (ppm)
DOI: 10.17882/72369
title: Drifter deployment in the framework of the IMPACT (Port impacts on marine protected areas: transnational cooperative actions) project

description: The deployment was part of the IMPACT project ( http://interreg-maritime.eu/web/impact ) and performed in collaboration with the CMRE-NATO under the framework of a LOGMEC (Long-term glider missions for environmental characterization) experiment. 40 CARTHE-type drifters were deployed in the open sea, in front of the Gulf of La Spezia Gulf (Italy) on May 2, 2019. CARTHE-type drifters are biodegradable drifters, spanning the first 60cm of the water column (Novelli 2017, 2018, 2020). The deployment strategy consisted of releasing drifters on a regular grid (about 6km side and 1km step, with some 500m nesting) in a time window of about 2-3 hours. 5 drifters were released in line after passing by the Portovenere Channel, while exiting the Gulf of La Spezia. 5 drifters were collected nearby Toulon (France) on May 17, 2019 and 4 of them were redeployed in the same area on June 24, 2020 (logistical support by University of Toulon). Each file contains a drifter trajectory in the NetCDF format (ex: 001.nc, 002.nc, etc...). Trajectories of those drifters that were collected and re-deployed are splitted in different files (ex: 001_a.nc, 001_b.nc). Nominal drifter transmission rate: 5 minutes. Positions available until June 28, 2019. The dataset includes raw positions; outliers were removed. References: • Novelli, G., C.M. Guigand, C. Cousin, E. Ryan, N. Laxague, H. Dai, B. Haus, and T.M. Özgökmen (2017). A biodegradable surface drifter for ocean sampling on a massive scale. J. Atmos. Oceanic Technol., 34(11), 2509-2532. • Novelli, G., C.M. Guigand, T.M. Özgökmen (2018). Technological Advances in Drifters for Oil Transport Studies. Marine Technology Society Journal, 52(6), 53-61. • Novelli, G, C.M. Guigand, M. Boufadel, T.M. Özgökmen (2020). On the transport and landfall of marine oil spills, laboratory and field observations. Marine Pollution Bulletin, 150, 110805.
DOI: 10.17882/72344
title: Deep moored current and hydrographic measurements in southwestern East Sea (Japan Sea)

description: Time-series data from subsurface moorings, U5 and UB2, and vertical profile data of conductivity-temperature-depth (CTD) were collected in the southwestern East Sea (Japan Sea). The moored current-meter data were collected using rotary-current meters (RCMs) at U5 at depths of 1000 and 2000 m from November 2002 to May 2006 and at UB2 at depths of 1000 and 1600 m from May 2006 to February 2010. Sampling intervals of the RCMs were 30 minutes or an hour. Six vertical profiles of temperature and salinity were collected using standard CTD instruments near U5 in August 1995, March 1997, June 1999, September 2005, August 2008, and October 2012. The data were quality controlled and quality assured before provision to the community via SEANOE.
DOI: 10.17882/72239
title: Global Ocean hind-cast simulations with NEMO-PISCES at varying resolutions (2°, 0.5°, 0.25°)

description: This dataset provides model output from hindast NEMO-PISCES simulations using the ORCA2, ORCA05, and ORCA025 configurations. The output includes for each configuration (1) a climatology of sea surface temperature and salinity over 1985-2005, (2) 3-D monthly velocity fields in x and y directions from 2001 to 2010, and (3) 3-D monthly total inorganic carbon output from 2001 to 2010 for a pre-industrial control simulation and from a historical simulation. The provided variables are monthly averaged.
DOI: 10.17882/72119
title: Plastics in sediments and fishes at the mouth of Chollas Creek, San Diego, USA

description: The extent to which small plastics and potentially associated compounds are entering coastal food webs, especially in estuarine systems, is only beginning to be realized. This study examined an estuarine reach at the mouth of urbanized Chollas Creek in San Diego, California to determine: 1) the extent and magnitude of microplastics pollution in estuarine sediments and fish, 2) the extent and magnitude of SVOC contamination in estuarine fish, and 3) whether fish preferentially ingested certain types of microplastics, when compared with the microplastic composition of creekbed sediments. Surface sediments (0-5 cm depth) contained about 10,000 small plastic pieces per m2, consisting mostly (90%) of fibers, and hard and soft pieces. Nearly 25% of fish contained small plastics, but prevalence varied with size and between species. Of the 25 types of small plastics found in sediment, fish preferred about 10 types (distinct colors and forms). Several SVOCs, both water soluble and sediment-associated compounds, were found in the two species of fish tested. This study revealed that a species’ natural history may influence contamination levels, and warrants further study to better understand the pathways of plastics and associated contaminants into and throughout coastal food webs, and the potential health risks for small and/or low-trophic level organisms.
DOI: 10.17882/71341
title: 1986-2018 near-surface sea temperature registered daily at the pumping station of the Nuclear Power Station of Flamanville (25 km south west of Cherbourg, Northwest Cotentin, sea Channel)

description: During 33 years, from January 1986 to December 2018, seawater temperature has then been registered daily at 4pm in the pumping station[1] of the Nuclear Power Station of Flamanville located 25 km south west of Cherbourg. In order to cool their condensers, seawater has been drawn off with a water flows of 45 m3s-1. The monthly average seawater temperature minimum has been registered in February (8,90°C), with extremes values in 1986 (6,80°C) and 2016 (10,33°C). The maximum of the seawater temperature has been registered in august (17, 81°C), varying from 16,28°C in 1986 to 18,60°C in 2014. The annual average seawater temperature is 13,09°C when using monthly average values and 13,13°C using all 12053 individuals values. Mean annual values differ from 11,37 °C in 1986 to 14,18 °C in 2014. Before this time-series of 33 years, the only dataset available had been registered between 1904 and 1923 and had been published in 35 by J. R. Lumby[2], from the Ministry of agriculture and fisheries of London (627 values during 20 years at the point R 26[3] , the closest from the head of Flamanville. In order to complete the time-series, EDF, in collaboration with the National Laboratory of Hydraulic (LNH[4]), uses the two sensors Fertex and Aanderaa[5] at 12 meter depth to get an additional time-series of 999 seawater temperatures recorded from September 1976 to May 1980, in a discontinuous way. An increase of 1,2 °C in the annual mean seawater temperature is observed between the first and the third time-series. A key point when analysing those three time-series is to keep in mind the difference in the location, depth and in the sensor. Conclusions from comparisons of those three time series need to be done carefully. Those data are now updated each year before being published in an annual report for Ifremer and EDF[6] about the ecological and fishery monitoring of Flamanville Nuclear Power Station location. [1] Geographical coordinates of the pumping station : 49,53 N – 1,88 W [2] LUMBY, J.R. 1935.- « Salinity and temperature of the English Channel ». Fishery Investigations, series II, vol. XIV, n°3 [3] Coordonnées géographiques du R 26 : 49° 37’ N – 02° 14’ W [4] Today Laboratoire National d'Hydraulique et Environnement (LNHE) [5] Geographical coordinates of Fertex and Aanderaa : 49° 32’ 29’’N - 001° 53’ 49’’W [6] ROPERT M., E. ANTAJAN, G. COURTAY, L. DREVES, A. FOVEAU, T. HERNÀNDEZ FARIÑAS, C. LOOTS, I. SCHLAICH , B. SIMON. (2019). Surveillance écologique et halieutique du site électronucléaire de Flamanville : Année 2018. RST/ODE/UL/LERN-19.001. Conv. EDF C4493C0850. 217 p.
DOI: 10.17882/71337
title: A global sea state dataset from spaceborne synthetic aperture radar wave mode data

description: This dataset consists of ocean wave integral parameters of significant wave height (SWH) and mean wave period (MWP) data derived from the Advanced Synthetic Aperture Radar (ASAR) onboard the ENVISAT satellite over its full life cycle (2002-2012) covering the global ocean. Both parameters are calibrated and validated against buoy data. Cross-validation between the ASAR SWH and radar altimeter (RA) data is also performed to ensure that the SAR-derived wave height data are of the same quality as the RA data. These data are stored in the standard NetCDF format, which are produced for each ASAR wave mode Level1B data delivered by the European Space Agency. This is for the first time that a full sea state product is derived from spaceborne SAR data over the global ocean for a decadal temporal scale.
DOI: 10.17882/71021
title: Data from marine sediment cores PAMELA-MOZ1-KS04 and PAMELA-MOZ1-KS07

description: Over the past ten years, a huge amount of source-to-sink studies have aimed to unravel the tectonic, climatic and other processes that shape the landscape from mountains to the deep ocean. Interestingly, these studies have been mainly dedicated to siliciclastic or mixed systems, for which the connection between drainage basins, continental shelves, slope and basin environments are often well constrained. Here we present a study focusing on a source-to-sink study dedicated to a pure carbonate system, located in the SW Indian Ocean (Glorieuses archipelago). Extensive field sampling and geophysical acquisition across the carbonate platform have allowed us to estimate the composition, the lateral variability, and volumes of neritic sands deposited on the platform top. Additional seismic and bathymetric surveys across the platform interior illustrate the presence of plurimetric sandy bodies deposited along the leeward platform edge, corresponding to the export of carbonate sediments from the platform top toward the platform edge, under the influence of dominant currents and wind-driven processes. High-resolution seismic, bathymetric data and sediment cores acquired along the leeward slope and basin adjacent to the carbonate platform highlight the presence of channel-levee complexes and turbiditic lobes, which have accumulated on the seafloor on top of a 250 m-thick sedimentary basin at 2000-3400 m water depth. Our study points out that carbonate sands and aragonitic mud produced on the platform top during the Holocene have been shed to the adjacent basin. We also demonstrate that this routing system was active at least throughout the last three glacial/interglacial cycles. This study has important consequences for our understanding of carbonate sedimentation processes occurring in the vicinity of isolated carbonate platforms: 1- it highlights the role of oceanographic conditions in the distribution of sediment on a platform top and its export along the platform edge and the adjacent basin; 2- it contributes to quantify the productivity of a carbonate platform as well as its sediment storage capacity; 3- a first estimate of a carbonate source-to-sink system is proposed, demonstrating that 0,57 km3 of sediments have been produced during the Holocene, 0,3 km3 being presently stored on the platform, and the remaining having been exported to the deep basin.
DOI: 10.17882/70991
title: Ensemble median global sea surface temperature dataset

description: Ensemble median global Sea surface temperature (EMSST) is a daily SST dataset constructed by Nagoya University from an ensemble of 18 global SST products for the period from January 1, 1988 to February 28, 2019. The data set includes SST calculated as an ensemble median on each 0.25 degree by 0.25 degree grids over global ice-free oceans. The data set also includes an ensemble mean, standard deviation, minimum, maximum, number and kind of source products used.
DOI: 10.17882/70980
title: On the Variability of Antarctic Circumpolar Current Fronts Inferred from 1992–2011 Altimetry

description: Antarctic Circumpolar Current (ACC) fronts, defined as water mass boundaries, have been known to respond to large-scale atmospheric variabilities, especially the Southern Hemisphere annular mode (SAM) and El Niño–Southern Oscillation (ENSO). Distinct patterns of localized variability in meridional front displacements during 1992–2011 are derived from the analysis of satellite sea surface height data. Major basin-scale differences are found between the southeast Pacific (150–90W) and the southeast Indian (75–150E) sectors of the ACC. Frontal positions in the southeast Pacific show large year-to-year meridional fluctuations, attributed mostly to ENSO and in part SAM, and no apparent seasonal cycles or long-term trends. In contrast, summer (winter) frontal locations in the southeast Indian extend farther to the south (north) of their long- term mean distribution. A southward drift of ACC fronts is indicated over the Indian sector during the past two decades. This long-term shift is not directly related to the atmospheric variabilities, but this is most likely in response to changes in large-scale ocean circulation, in particular to the poleward expansion of the Indian subtropical gyre. The existence of these localized, contrasting variability patterns suggests that a circumpolar- averaging analysis could possibly smooth out a local climate signal, with an emphasis on a basin-scale investigation for climate studies in the Southern Ocean.
DOI: 10.17882/70934
title: FoW-SMADCP-3, Seabed Mounted ADCP survey at EMEC tidal test site at Fall of Warness, Orkney, UK

description: ADCP data was collected at EMEC full scale tidal site. No structures were present around the instrument at the time of the deployment. ADCP was mounted on a seabed frame
DOI: 10.17882/70908
title: A late Pleistocene dataset of Agulhas Current variability

description: The interoceanic transfer between the Indian and the Atlantic Oceans known as ‘Agulhas leakage’ is of global significance as it alters the Atlantic Meridional Overturning Circulation (AMOC) on different time scales. Variability in the Agulhas Current regime is key in shaping hydroclimate on the adjacent coastal areas of the African continent today as well as during the past. However, the lack of long, continuous records from the Agulhas Current core region dating beyond the last glacial cycle prevents elucidation of its role in regional and wider global climate changes. This is the first continuous record of hydrographic variability (SST; δ18Osw) from the Agulhas Current core region spanning the past 270,000 years. The data set is analytical sound and provides a solid age model. As such, it can be used by paleoclimate scientists, archaeologists, and climate modelers to evaluate e.g. linkages between the Agulhas Current system and AMOC dynamics, as well as connections between ocean heat transport and Southern African climate change in the past and its impact on human evolution.