AndreaBozzo/ceres-open-data-index huggingface dataset:
Underway fluorometer data from cruise DEKOSIM Mediterranean Aug 2019

The dataset contains pairs of files with fluorometer data acquiured underway during the cruise. The first file in a pair named "fluoXX", where XX is sequentional number, contains raw output of fluorometer. Each record in the file contains: global time (seconds from 01/01/1970), internal No, date, time, Chl-a value, and temperature value. The second file in a pair named "gpsXX" contains the respective GPS data: global time (seconds from 01/01/1970) and GPS GPGGA sentence in each record. The fluorometer model: 10-AU-005-CE of Turner Design. The raw output from the autoranging fluorometer has no absolute meaning without calibration against sample data, however it allows to investigate spatial variablity of parameter.
Macronutrient data collected by RRS James Clark Ross cruise 28 around South Georgia and the Maurice Ewing Bank (Southern Ocean), Jan-Feb 1998

The dataset comprises macronutrient (nitrate, nitrite, phosphate, silicate, ammonia/ammonium) data collected on RRS James Clark Ross cruise 28 around South Georgia and the Maurice Ewing Bank in the Southern Ocean. The data were collected using CTD rosette water bottles and the ship's non-toxic seawater supply with an intake depth about 6 - 7 m between 14 January and 07 February 1998 as part of an integrated ecosystem analysis. They form part of a more extensive dataset collected over 30 years, between 1980 and 2009, by the British Antarctic Survey.
Signature Discovery Points - Wild Atlantic Way

The Wild Atlantic Way Route is a long distance touring route along the West Coast of Ireland, stretching from Donegal to Cork. This dataset is a set of locations along the Wild Atlantic Way that are points of interest which a tourist or member of the public maybe interested in stopping at. These are a subset of the Discovery points dataset, they represent 15 of discovery points dataset that have been designated as “Signature Points”. These places are especially unique and shape the image of Ireland’s remarkable west coast.
Phycotoxin-producing phytoplankton collected from water at mussel farm/aquaculture

Samples for phytoplankton analyses are collected by employees responsible for farming at musselfarms/aquaculture to monitor the presence and abundance of toxin-producing phytoplankton. These samples are submitted to SMHI on a bi-weekly basis from mussel farms/aquaculture in coastal areas off the west coast of Sweden. On each sampling occasion two samples from plankton net trawls are pooled in addition to a sample collected with a cylindrical water sampler for integrated sampling 0-10 m. The main attributes are phytoplankton (specifically phycotoxin producing) species composition, biovolumes and abundance. The sampling and data is important for monitoring potential health risks for consumers from biotoxins in the musselfarm/aquaculture processes.
Annotation of the genome assembly (version 2) of the microalga Tisochrysis lutea

We recently published the first draft genome of T. lutea obtained with the Illumina short-read technology. While this technology has a very low sequencing error rates, the assemblers are known to misassemble the long repeated sequences, resulting into the fragmentation of the genome assembly. The genome of T. lutea was re-sequenced with the long-read technology Pacific Bioscience. Indeed, long-read assemblers show efficiency to resolve the assembly of long repeated elements such as TEs. However, this technology have to date a high sequencing error rates and its combination with short-read Illumina data is became a common method to overcome this error rate. A de novo genome assembly was perform from the long-reads and was improved with Illumina short-read data, used in the first genome assembly version.

The de novo genome of T. lutea is composed of 193 contigs and has a size of 82 Mb. A gain of around 30 Mb was obtained (+34%), compared to the previous genome assembly, having a size of 54 Mb and composed of 7,659 contigs. The size of the coding regions has fewly increased between the both genome versions. While the de novo genome assembly encodes for ~16,000 genes, corresponding to a coding region length of 28 Mb, the previous gene proportion of the draft genome version was of 25 Mb. This suggest that the new assembled regions are mostly repeated elements. This new genome version is by far away more accurate than the previous one and was suitable to properly detect and annotate the TE content.

To identify potential autonomous TEs, we designed a pipeline named PiRATE (Pipeline to Retrieve and Annotate TEs) and conducted an accurate TE annotation in a de novo genome of T. lutea. We established that its genome is composed of 15.9% and 4.9% of Class I and Class II TEs respectively. Among them 3.8% and 15.95% correspond to potentially autonomous and non-autonomous TEs respectively.
Seines Fishing Effort

This dataset shows the distribution of fishing effort by fishing vessels according to the gear type used. Fishing effort is defined as the time spent engaged in fishing operations or time spent at sea, this time may be multiplied by a measure of fishing capacity, e.g. engine power. In this dataset fishing effort is measured as average hours spent actively fishing per kilometre square, per year. Data from years 2014 to 2018 was used to produce this data product for the Marine Institute publication the “Atlas of Commercial Fisheries around Ireland, third edition“ (https://oar.marine.ie/handle/10793/1432).
Microplastics in marine sediments-North Sea and Skagerrak

This work was carried out for the Danish Environment Protection Agency (EPA) targeting microplastics (MP) in Danish marine sediments. It addresses the geographical distribution of MP in sediments from 23 stations, among which, 19 were analysed in 2022 (https://www.emodnet-ingestion.eu/submissions/submissions_details.php?menu=39&tpd=1185&step=001Denmark), and four were analysed in 2023. One of these four samples were collected from Skagerrak, and three were from the North Sea.

It attempts to map the level and geographical distribution of MP in sediments from the North Sea and Skagerrak. The monitoring should furthermore create a baseline for future efforts to assess temporal changes of MP in Danish marine sediments.
Seabed Litter Data from Bottom Trawl Surveys in Maltese Waters (2012-2017)

Data on litter on the seabed in deep waters was extrapolated from photographs of marine litter collected through the different sessions of the MEDITS international bottom trawl surveys conducted between the years of 2012 - 2017.  Litter items were classified in accordance with the MSFD classification as prepared by the MSFD GES Technical Subgroup on Marine Litter in the Guidance Document, ‘Guidance on Monitoring of Marine Litter in European Seas’.
Microlitter particles in water surface sampled with ferrybox in Danish waters 2019 - 2020

In a pilot study, microlitter was sampled with a Ferry Box system on the commercial ferry (M/S Color Line Fantasy) between Oslo and Kiel. The system acquired samples in the Danish part of the Skagerrak and Kattegat. In total thirteen samples were collected from September 2019 to February 2020 using mesh sizes 100 and 500 µm. Eleven samples were successfully processed. The samples were subsequently processed and analysed for chemical composition using FTIR.  Microplastic amounts found ranged from 0 to 1.85 fragments or fibers per m3 (average 0.71 per m3).
Underwater noise data at Mutriku station

Underwater noise data at Mutiku station recorded by iClisten HF 200 Ocean Sonics instrument. Sound pressure level (SPL) centered in the 63Hz band (SPL63), 15Hz band (SPL125) and 2000Hz band (SPL2K) in 1/3 ocatve and integrated time interval of 20s. They cover data from June to October 2018.
Slovenian marine and coastal archeological heritage

The sea along the Slovenian coast was long thought to be empty and devoid of interest as far as vestiges of the past were concerned. Some decades ago, however, fishers began reporting on wooden timbers caught in their nets, amateur fishermen were observing wooden hulls during breath-hold diving on undisclosed locations and divers with autonomous diving gear were relating fascinating shipwrecks from World War II, which revealed quite a different picture. The sea has since been scientifically investigated, and in the last two decades, members of the Scientific Research Section of the Port of Koper Divers’ Society have compiled a list of 20 sunken objects, while new data has also been acquired by the high-resolution bathymetric survey of the Slovenian seafloor in 2006-2008. The cultural heritage register at the Ministry of Culture of the Republic of Slovenia today includes 52 underwater areas, both coastline and sea, with cultural remains. However, more than 90 observed underwater areas which are not in National cultural heritage register are recognised as anthropogenic changes which are connected to the transgression of Adriatic sea to the Nord Adriatic Sea finished around 5000 years ago. Almost 37 registered sites are wrecks among them also the earliest known shipwreck in Slovenia, dating to the Roman period. This register represents the first step towards fulfilling the commitments of the UNESCO Convention on the Protection of the Underwater Cultural Heritage.
Irish National Marine Planning Framework (NMPF) Area

The National Marine Planning Framework (NMPF) Area is the geographic area management and reporting unit for Ireland's NMPF reporting. The NMPF sits at the top of the hierarchy of plans and sectoral policies for the marine area of Ireland. Marine planning brings together multiple users of the ocean to make informed and coordinated decisions on the sustainable use of marine resources. EU Directive 2014/89/EU, establishing a framework for maritime spatial planning, was adopted in July 2014. The European Union (Framework for Maritime Spatial Planning) Regulations 2016 were signed into law on 29th June 2016. The NMPF is managed by the Department of Housing Planning and Local Government (DHPLG) with monitoring support provided by the Marine Institute.
Collocations of ICOADS and Ocean Heat Flux (centered five-day) daily sensible and latent heat flux estimates

Ocean latent (LHF) and sensible (SHF) heat flux products developed by several scientific groups have been examined in the European Space Agency (ESA) Ocean Heat Flux (OHF) project.  This dataset is the collocations of nine OHF products with in situ surface marine observations of the International Comprehensive Ocean–Atmosphere Data Set (ICOADS Version 3).  Required for inclusion are that a) valid collocations exist with all OHF products and their ensemble and b) all ICOADS variables required to calculate a COARE flux estimate are within 2.8 estimated standard deviations of their respective smoothed monthly climatology.  All values (including ICOADS flux estimates by the COARE 3.0 algorithm) are considered at the daily, 0.25-degree resolution of the project’s reference grid.  The nine product collocations include additional samples at daily intervals from two days before to two days after ICOADS collocation.  Further information about the nine standardized products can be found in Bentamy et al. (2018).
Ballast water observations and ports data

This dataset includes the data used in in the HELCOM/OSPAR Ballast Water Exemptions Decision Support Tool. This tool was developed in 2013 based on the overall IMO framework, the 21 Baltic and North-East Atlantic coastal states and the EU. It allows user to define “low risk” routes, as well as other necessary steps in granting exemptions under regulation A-4 of the IMO Ballast Water Management Convention (BWMC).
The data were collected in various European ports and includes not only biodiversity data but also hydrographic, sediment and meteorological measurements in the sampling sites.
Macronutrient data collected by RRS James Clark Ross cruise 177 around the Scotia Sea and South Georgia (Southern Ocean), Dec 2007-Feb 2008

The dataset comprises macronutrient (nitrate, phosphate, silicate, ammonia/ammonium) data collected on RRS James Clark Ross cruise 177 around the Scotia Sea and South Georgia in the Southern Ocean. The data were collected using CTD rosette water bottles and the ship's non-toxic seawater supply with an intake depth about 6 - 7 m between 30 December 2007 and 16 February 2008 as part of an integrated ecosystem analysis. They form part of a more extensive dataset collected over 30 years, between 1980 and 2009, by the British Antarctic Survey.
Macronutrient data collected by RRS John Biscoe cruise 08 around South Georgia, in the Bransfield Strait and Drake Passage (Southern Ocean), Dec 1987-Mar 1988

The dataset comprises macronutrient (nitrate, nitrite, phosphate, silicate, ammonia/ammonium) data collected on RRS John Biscoe cruise 08 around South Georgia, in the Bransfield Strait and Drake Passage in the Southern Ocean. The data were collected between 28 December 1987 and 11 March 1988 as part of an integrated ecosystem analysis. They form part of a more extensive dataset collected over 30 years, between 1980 and 2009, by the British Antarctic Survey.
Kolkheti coastal dynamic system

The objective of research was to study Poti - Supsa Coastal Line Changes ( Grigoleti area) using all existing data (including historical ), aiming to reveal development of   river Rioni new delta (Nabada) and Poti sea port entrance channel sedimentation processes.   The old maps (from 1957 to 2016) of river Rioni new delta (Nabada) were retrieved  from the Poti sea port archive, which  were referenced to the new Gamma Consulting ltd produced maps, transformed to  UTM-37N projection, maps were referenced by visual orienteers.
Eiffel Tower edifice: environmental conditions from Momareto (2006) and Exomar (2005) cruises

Thermal conditions over mussel assemblages on the hydrothermal edifice Eiffel Tower (Lucky Strike vent field, Mid-Atlantic Ridge), during Exomar (2005), Momareto (2006) cruises. Details on the sampling method and biodiversity analysis are published in Sarrazin et al. 2015 (https://doi.org/10.1016/j.dsr2.2015.04.013) and Husson et al. 2017 (https://doi.org/10.1016/j.dsr2.2016.05.028).
ILIAD - Oceanographic data of Palio Buoy

The Palio Buoy, deployed in the North Aegean Sea, serves as a critical in-situ observation platform within the ILIAD project’s Oil Spills – Aegean Digital Twin. Equipped with oceanographic sensors, the buoy provides continuous measurements of oceanographic sea surface temperature, salinity, dissolved oxygen, TDS, currents, and waves conditions.
This high-resolution, real-time data supports the satellite-based oil spill detection system by supplying ground-truth environmental parameters for validating anomalies detected on Sentinel-1 imagery. Moreover, the buoy’s measurements feed into hydrodynamic and oil spill trajectory models, improving the accuracy of forecasts for spill movement under changing wave, and current conditions.
Integrated with the Oceancast visualization platform and the ILIAD Marketplace, Palio Buoy data contributes to near real-time situational awareness, enabling authorities, environmental agencies, and stakeholders to respond rapidly and effectively to oil spill incidents in the North Aegean.
Mapping of landslides affecting the present day seafloor of the Gulf of Vera continental margin (SW Mediterranean)

Narrative: The mapping of the landslides have been carried out base on  multibeam bathymetry recorded using Simrad EM12 and Atlas HYDROSWEEP DS multibeam echosounders, during cruises from the Spanish Fishing General Secretary (2003 and 2004) and FAUCES (2018) Project. Morphometric attributes such as slope gradients, profile curvatures, planar curvatures and roughness were obtained by ArcMap (GIS), and topographic profiles allowed us to obtain a better characterization of landslides. Also seismic records with different degrees of penetration (0.5 to 1.5 s) and resolution (from a few metres to decimetres) were analysed for landslide characterization. 

Publication:Ercilla, G., Galindo-Zaldívar, J., Estrada, F., Valencia, J., Juan, C., Casas, D., ... & Yenes, M. (2022). Understanding the complex geomorphology of a deep sea area affected by continental tectonic indentation: The case of the Gulf of Vera (Western Mediterranean). Geomorphology, 402, 108126.
Substances and nutrients in the Moonsund and the Gulf of Riga

The aim of the research was to support the measures planned in the development plan of the Estonian Marine Strategy, incl. the determination of classes of the environmental status of the marine environment, the assessment of the environmental status and the achievement of a good environmental status. Sediment samples, sediment profiles if possible, and bottom water layer profiles were taken from 5 Moonsund and 12 Gulf of Riga stations. Sediment samples (50 samples in total) were analyzed for dry matter content, fine fraction (<2 µm) content, organic matter content, total phosphorus, total nitrogen, arsenic, lead, cadmium, chromium, copper, zinc, mercury, 9 polyaromatic hydrocarbons (PAHs), mineral oils, 7 polychlorinated biphenyls (PCBs), 12 polybrominated diphenyls (PBDEs) and 10 organotin compounds in the sediment surface layer (0-5 cm). Based on the work, it was claimed that the environmental condition of the sediment of the Moonsund and the Gulf of Riga is good. However, we cannot say that some organic compounds, in particular carcinogenic polyaromatic hydrocarbons (PAHs) and organotin compounds, do not pose a risk to living organisms. In the future, it would be necessary to study the distribution of organotin and PAHs in the central part of the Gulf of Riga with more precise methods, and the content of PAHs in the bottom water layer should also be studied.
Vessel-mounted ADCP data (current profiles) collected during Med-SHIP cruise TAlPro2022

This data set contains the post-processed current profiles collected by means of a vessel-mounted ADCP (on the Belgia vessel RV BELGICA) in the Western Mediterranean Sea during May 2022. The TAlPro2022 cruise was part of the Med-SHIP programme. During the whole campaign a VM-ADCP (RDI Ocean Surveyor, 75 KHz) worked along the ship route. The depth range of the current profiler is about 725 m. Data acquisition is carried out using the RDI VMDAS software vers. 1.50.19. The number of bins has been set to 80, with a bin size of 10 m . The instrument ran in narrowband mode and was controlled by computers using the conventional RDI VMDAS software under a MS Windows system with a pinging set to be as fast as possible. No interferences with other used acoustical instruments were observed.
Microlitter particles in water surface sampled with ferrybox in Danish waters autumn 2020

Microlitter was sampled with a module fitted on a Ferry Box system on the commercial ferry cruises (M/S Color Line Fantasy) between Oslo and Kiel. The system acquired samples in the Danish part of the Skagerrak and Kattegat. In total seven samples were collected from 23-10-2020 to 02-11-2020 using filters of mesh sizes of 300 and 500 µm. Particles were visually identified and analysed for chemical composition using FTIR. Particle concentrations ranged from 0.39 to 1.85 particles per m3 (average 0.91 per m3).
AMBER

AMBER Concept
The general aim of AMBER is the implementation and application of the Ecosystem Approach to Management (EAM) to the Baltic Sea with a focus on the coastal ecosystem (CE). The first step of AMBER is the separation of climate from anthropogenic signals in the CE by means of a combinatorial variation in modelâ€™s boundary conditions using the output of existing regional climate change scenarios and the output of a watershed model simulating changes in land use.

The second step of AMBER is the application of models for future projections. To reduce the problem of model uncertainties, the ensemble method will be applied. The resulting projections are milestones for the development of EAM tools.
Autonomous ibuttons temperature data from the EMSO-Azores observatory, 2016-2017

This dataset contains temperature data acquired between September 2016 and July 2017 using 10 thermocrons i-buttons © installed along chains in the field of view of the SMOOVE camera connected the SeaMoN East frame. Data was acquired every hour. The array is not connected to an energy node. They are associated with the SMOOVE camera which is part of the SeaMoN East ecological monitoring node.
Momareto 2006: inventory and densities of sampled species

Densities data measured from abundances of inventoried species on the hydrothermal edifice Eiffel Tower (Lucky Strike vent field, Mid-Atlantic Ridge), during Momareto cruise (2006). Twelve sampling units were selected to represent variate mussel assemblages on the edifice. Details on the sampling method and biodiversity analysis are published in Sarrazin et al. 2015 (https://doi.org/10.1016/j.dsr2.2015.04.013)
SLU Sail drone 2018-2021

During the late spring and summer of 2020, the SLU Aqua Sailor drone sails between the great Swedish islands of Öland and Gotland and collects data on the amount of fish and zooplankton. The drone survey partly takes place at the same time as the fisheries survey Sprat Acoustic Survey (Spras). Spras collects information on herring and sprat in the Baltic Sea, and is carried out with the research vessel R/V Svea. By matching data from Spras with data from the sailing drone, the researchers hope to gain better knowledge of how the Baltic Sea ecosystem works. This was repeated in 2022-2023.
In 2019, SLU Aqua Sailor was used around the islands Karlsöarna in the Baltic Sea during 42 days between April and July 2019. The same survey took place In 2020 and 2021
Thermistor chain temperature data from the EMSO-Azores observatory, 2016-2017

This dataset contains temperature data acquired between 7 September 2016 and February 2017 using hundred ONE_WIRE_DS18B20S (Maxim IC) sensors installed along a 70 m chain. Sensors are located on the last 50 m of the chain, each separated by 50 cm. The chain is connected to the SeaMoN East frame which is part of the SeaMoN East ecological monitoring node. Data was acquired every five minutes. The chain suffered a malfunction starting in January 2017. Data was cleaned for obvious outliers (temperature > 84°C or < 4°C). Data from 18 to 21 January 2017 should be considered with caution. Data after 21 January 2017 were removed.
CTD, Disko west cruise 2009

In September 2009, a ship-based study was carried out in the Davis Strait/southern Baffin Bay along a range of transects covering the area between the west coast of Greenland and Baffin Island (Canada) from 68-72º N . Water temperature, salinity and in situ chlorophyll a (chl. a) measured in 0-500 m depths followed the general hydrographical characteristics of the late summer situation.
Surface chl. a concentration based on remote sensing satellite data from September 2009 supported these findings. Measurement of in situ chl. a concentrations revealed a maximum in the subsurface (30-50 m water depths). Thus, spatial distribution of the phytoplankton bloom was often restricted to subsurface rather than the surface waters and therefore not detected by the remote sensing during September.