Here, our study aimed to first assess the influence of plastic on the bacterial community belonging to water, plastic and the microbiome of the giant clam and on the organism's physiology of this putative sentinel species. Our second objective was to identify bacteria whose abundance varies significantly with plastic concentration. Overall, this study will fill the gap towards a better understanding of the impact of plastic pollution on bacterial community assemblages in both inert and living environments.

DNA sequencing of Crassostrea gigas Pacific oyster spat experimentally infected with OsHV-1 virus from oyster basin of Marennes-Oleron

Metabarcoding data were produced based on samples gathered at Ifremer where the DNA was extracted; PCR libraries were built at Ifremer and Genseq; libraries were sequenced at Novogene. The data to download contain: 1/d emultiplexed raw data, 2/ metadata, and 3) Scripts to process data and taxonomically assign DNA sequences 4) Rmarkdown to analyze communities.

Sequenced samples are city center wastewater sampled by passive samplers. Variants are identified by Illumina Miseq sequencing.

'''DEFINITION''' The OMI_EXTREME_WAVE_MEDSEA_swh_mean_and_anomaly_obs indicator is based on the computation of the 99th and the 1st percentiles from in situ data (observations). It is computed for the variable significant wave height (swh) measured by in situ buoys. The use of percentiles instead of annual maximum and minimum values, makes this extremes study less affected by individual data measurement errors. The percentiles are temporally averaged, and the spatial evolution is displayed, jointly with the anomaly in the target year. This study of extreme variability was first applied to sea level variable (Pérez Gómez et al 2016) and then extended to other essential variables, sea surface temperature and significant wave height (Pérez Gómez et al 2018). '''CONTEXT''' Projections on Climate Change foresee a future with a greater frequency of extreme sea states (Stott, 2016; Mitchell, 2006). The damages caused by severe wave storms can be considerable not only in infrastructure and buildings but also in the natural habitat, crops and ecosystems affected by erosion and flooding aggravated by the extreme wave heights. In addition, wave storms strongly hamper the maritime activities, especially in harbours. These extreme phenomena drive complex hydrodynamic processes, whose understanding is paramount for proper infrastructure management, design and maintenance (Goda, 2010). In recent years, there have been several studies searching possible trends in wave conditions focusing on both mean and extreme values of significant wave height using a multi-source approach with model reanalysis information with high variability in the time coverage, satellite altimeter records covering the last 30 years and in situ buoy measured data since the 1980s decade but with sparse information and gaps in the time series (e.g. Dodet et al., 2020; Timmermans et al., 2020; Young & Ribal, 2019). These studies highlight a remarkable interannual, seasonal and spatial variability of wave conditions and suggest that the possible observed trends are not clearly associated with anthropogenic forcing (Hochet et al. 2021, 2023). For the Mediterranean Sea an interesting publication (De Leo et al., 2024) analyses recent studies in this basin showing the variability in the different results and the difficulties to reach a consensus, especially in the mean wave conditions. The only significant conclusion is the positive trend in extreme values for the western Mediterranean Sea and in particular in the Gulf of Lion and in the Tyrrhenian Sea. '''COPERNICUS MARINE SERVICE KEY FINDINGS''' The mean 99th percentiles showed in the area present a range from 1.5-3.5 in the Gibraltar Strait and Alboran Sea with 0.25-0.55 of standard deviation (std), 2-5m in the East coast of the Iberian Peninsula and Balearic Islands with 0.2-0.4m of std, 3-4m in the Aegean Sea with 0.4-0.6m of std to 3-5m in the Gulf of Lyon with 0.3-0.5m of std. Results for this year show a positive anomaly in the Gibraltar Strait (+0.8m), and a negative anomaly in the Aegean Sea (-0.8m), the East Coast of the Iberian Peninsula (-0.7m) and in the Gulf of Lyon (-0.6), all of them slightly over the standard deviation in the respective areas. '''DOI (product):''' https://doi.org/10.48670/moi-00263

This dataset provides a World Ocean Atlas of Argo inferred statistics. The primary data are exclusively Argo profiles. The statistics are done using the whole time range covered by the Argo data, starting in July 1997. The atlas is provided with a 0.25° resolution in the horizontal and 63 depths from 0 m to 2,000 m in the vertical. The statistics include means of Conservative Temperature (CT), Absolute Salinity, compensated density, compressiblity factor and vertical isopycnal displacement (VID); standard deviations of CT, VID and the squared Brunt Vaisala frequency; skewness and kurtosis of VID; and Eddy Available Potential Energy (EAPE). The compensated density is the product of the in-situ density times the compressibility factor. It generalizes the virtual density used in Roullet et al. (2014). The compressibility factor is defined so as to remove the dependency with pressure of the in-situ density. The compensated density is used in the computation of the VID and the EAPE.

The Level-2 Ka-band Radar Interferometer (KaRIn) low rate (LR, ocean) sea surface height (SSH) data product from the Surface Water and Ocean Topography (SWOT) mission, also referenced by the short name L2_LR_SSH, provides ocean topography measurements from the low rate ocean data stream of the KaRIn instrument, spanning 60 km on either side of the nadir altimeter with a nadir gap. The L2_LR_SSH product is available continuously and globally, although different versions of the product may be produced at different latencies and/or through different reprocessing with refined input data. Note that L2_LR_SSH does not include SSH data from the SWOT nadir altimeter. The SWOT L2_LR_SSH product is organized in four files, the L2_LR_SSH ['Expert'] is described in this metadata sheet. The 3 other file types (['Basic'], ['WindWave'], ['Unsmoothed']) are described by 3 different metadata sheets that can be accessed via the links below. The ['Expert'] file is intended for expert users who are interested in the details of how the KaRIn measurements were derived and who may use detailed information for their own custom processing. The ['Basic'] file is intended for users who are interested in SSH measurements and who will use the KaRIn measurements as provided. The ['WindWave'] file is intended for users interested in wind and wave information. The ['Unsmoothed'] file, also intended for expert users, is provided on a finer 'native' grid of 250-m (with minimal smoothing applied), and has a significantly larger data volume than the other files. The ['Expert'] L2_LR_SSH includes copies of all variables in the Basic and WindWave files (sea surface height (SSH), sea surface height anomaly (SSHA), data quality flags, geophysical reference fields, height correction information, significant wave height (SWH), normalized radar cross section (NRCS or backscatter cross section or sigma0), wind speed derived from sigma0 and SWH, wind and wave model information, quality flags on a 2 km geographically fixed grid), plus more detailed information on the KaRIn instrument and environmental corrections, radiometer data, and geophysical models on a 2 km geographically fixed grid. May 2025: v3.0 (version D) Production and distribution of the L2_LR_SSH version D products: - PID0 for forward-processed version D products: from May 6, 2025 onward, - PGD0 for reprocessed version D products: from March 30 to July 10, 2023 (phase CalVal) and from July 26, 2023 to May 19, 2025 (phase Science) is ongoing. August 2024: v2.0 (version D) L2_LR_SSH version C products declared as validated by the SWOT project. March 2024: v2.0 (version C) Production and distribution of the pre-validated L2_LR_SSH version C products: - PIC0 for forward-processed version C products: November 23, 2023 to present, - PGC0 for reprocessed version C products: from March 30 to July 10, 2023 (phase CalVal) and from July 26, 2023 to January 25, 2024 (phase Science) November 2023: v1.0 The beta pre-validated L2_LR_SSH version 1.0 product (summer 2023 reprocessing release) is available only for the 1-day CalVal orbit phase, from March 29 to July 10, 2023, and the 21-day Science orbit phase from September 7 to November 21, 2023.

The Level-2 Ka-band Radar Interferometer (KaRIn) low rate (LR, ocean) sea surface height (SSH) data product from the Surface Water and Ocean Topography (SWOT) mission, also referenced by the short name L2_LR_SSH, provides ocean topography measurements from the low rate ocean data stream of the KaRIn instrument, spanning 60 km on either side of the nadir altimeter with a nadir gap. The L2_LR_SSH product is available continuously and globally, although different versions of the product may be produced at different latencies and/or through different reprocessing with refined input data. Note that L2_LR_SSH does not include SSH data from the SWOT nadir altimeter. The SWOT L2_LR_SSH product is organized in four files, the L2_LR_SSH ['WindWave'] is described in this metadata sheet. The 3 other file types (['Basic'], ['Expert'], ['Unsmoothed']) are described by 3 different metadata sheets that can be accessed via the links below. The ['WindWave'] file is intended for users interested in wind and wave information. The ['Basic'] file is intended for users who are interested in SSH measurements and who will use the KaRIn measurements as provided. The ['Expert'] file is intended for expert users who are interested in the details of how the KaRIn measurements were derived and who may use detailed information for their own custom processing. The ['Unsmoothed'] file, also intended for expert users, is provided on a finer 'native' grid of 250-m (with minimal smoothing applied), and has a significantly larger data volume than the other files. The ['WindWave'] L2_LR_SSH includes measured significant wave height (SWH), normalized radar cross section (NRCS or backscatter cross section or sigma0), wind speed derived from sigma0 and SWH, wind and wave model information, and quality flags on a 2 km geographically fixed grid. May 2025: v3.0 (version D) Production and distribution of the L2_LR_SSH version D products: - PID0 for forward-processed version D products: from May 6, 2025 onward, - PGD0 for reprocessed version D products: from March 30 to July 10, 2023 (phase CalVal) and from July 26, 2023 to May 19, 2025 (phase Science) is ongoing. August 2024: v2.0 (version D) L2_LR_SSH version C products declared as validated by the SWOT project. March 2024: v2.0 (version C) Production and distribution of the pre-validated L2_LR_SSH version C products: - PIC0 for forward-processed version C products: November 23, 2023 to present, - PGC0 for reprocessed version C products: from March 30 to July 10, 2023 (phase CalVal) and from July 26, 2023 to January 25, 2024 (phase Science) November 2023: v1.0 The beta pre-validated L2_LR_SSH version 1.0 product (summer 2023 reprocessing release) is available only for the 1-day CalVal orbit phase, from March 29 to July 10, 2023, and the 21-day Science orbit phase from September 7 to November 21, 2023.

This visualization product displays the density of seafloor litter per trawl. EMODnet Chemistry included the collection of marine litter in its 3rd phase. Since the beginning of 2018, data of seafloor litter collected by international fish-trawl surveys have been gathered and processed in the EMODnet Chemistry Marine Litter Database (MLDB). The harmonization of all the data has been the most challenging task considering the heterogeneity of the data sources, sampling protocols (OSPAR and MEDITS protocols) and reference lists used on a European scale. Moreover, within the same protocol, different gear types are deployed during fishing bottom trawl surveys. In cases where the wingspread and/or number of items were unknown, data could not be used because these fields are needed to calculate the density. Data collected before 2011 are affected by this filter. When the distance reported in the data was null, it was calculated from: - the ground speed and the haul duration using this formula: Distance (km) = Haul duration (h) * Ground speed (km/h); - the trawl coordinates if the ground speed and the haul duration were not filled in. The swept area is calculated from the wingspread (which depends on the fishing gear type) and the distance trawled: Swept area (km²) = Distance (km) * Wingspread (km) Densities have been calculated on each trawl and year using the following computation: Density (number of items per km²) = ∑Number of items / Swept area (km²) Percentiles 50, 75, 95 & 99 have been calculated taking into account data for all years. More information on data processing and calculation are detailed in the document attached. Warning: the absence of data on the map doesn't necessarily mean that they don't exist, but that no information has been entered in the Marine Litter Database for this area.

This visualization product displays fishing related items density per trawl. EMODnet Chemistry included the collection of marine litter in its 3rd phase. Since the beginning of 2018, data of seafloor litter collected by international fish-trawl surveys have been gathered and processed in the EMODnet Chemistry Marine Litter Database (MLDB). The harmonization of all the data has been the most challenging task considering the heterogeneity of the data sources, sampling protocols (OSPAR and MEDITS protocols) and reference lists used on a European scale. Moreover, within the same protocol, different gear types are deployed during fishing bottom trawl surveys. In cases where the wingspread and/or the number of items were unknown, data could not be used because these fields are needed to calculate the density. Data collected before 2011 are affected by this filter. When the distance reported in the data was null, it was calculated from: - the ground speed and the haul duration using this formula: Distance (km) = Haul duration (h) * Ground speed (km/h); - the trawl coordinates if the ground speed and the haul duration were not filled in. The swept area is calculated from the wingspread (which depends on the fishing gear type) and the distance trawled: Swept area (km²) = Distance (km) * Wingspread (km) Densities have been calculated on each trawl using the following computation: Density of fishing related items (number of items per km²) = ∑Number of fishing related items / Swept area (km²) Percentiles 50, 75, 95 & 99 have been calculated taking into account data for all years. The list of selected items for this product is attached to this metadata. Information on data processing and calculation is detailed in the attached methodology document. Warning: the absence of data on the map doesn't necessarily mean that they don't exist, but that no information has been entered in the Marine Litter Database for this area.