Le partenariat entre l’ensapBx et le GIP ATGeRi a permis la réalisation d’un atlas numérique via le catalogue et le visualiseur PIGMA. Cet atlas numérique donne accès à : - une carte sur laquelle sont situés des travaux d’étudiants et enseignants de l’ensapBx, - un lien vers le portail ArchiRès dans lequel sont décrits ces travaux de l’ensapBx avec téléchargement du document (lorsqu’il a été numérisé). De nombreux documents ont été référencés par l'ensapBx dans le catalogue PIGMA. Ils portent essentiellement sur les TPFE (travail personnel de fin d'études) et les PFE (projet de fin d'études). Ce référencement est alimenté progressivement par de nouveaux travaux.

NAUTILOS, a Horizon 2020 Innovation Action project funded under EU’s the Future of Seas and Oceans Flagship Initiative, aims to fill in marine observation and modelling gaps for biogeochemical, biological and deep ocean physics essential ocean variables and micro-/nano-plastics, by developing a new generation of cost-effective sensors and samplers, their integration within observing platforms and deployment in large-scale demonstrations in European seas. The principles underlying NAUTILOS are those of the development, integration, validation and demonstration of new cutting-edge technologies with regards to sensors, interoperability and embedding skills. The development is always guided by the objectives of scalability, modularity, cost-effectiveness, and open-source availability of software products produced. Bringing together 21 entities from 11 European countries with multidisciplinary expertise, NAUTILOS has the fundamental aim to complement and expand current European observation tools and services, to obtain a collection of data at a much higher spatial resolution, temporal regularity and length than currently available at the European scale, and to further enable and democratize the monitoring of the marine environment to both traditional and non-traditional data users.

'''This product has been archived''' '''DEFINITION''' The temporal evolution of thermosteric sea level in an ocean layer is obtained from an integration of temperature driven ocean density variations, which are subtracted from a reference climatology to obtain the fluctuations from an average field. The regional thermosteric sea level values are then averaged from 60°S-60°N aiming to monitor interannual to long term global sea level variations caused by temperature driven ocean volume changes through thermal expansion as expressed in meters (m). '''CONTEXT''' Most of the interannual variability and trends in regional sea level is caused by changes in steric sea level. At mid and low latitudes, the steric sea level signal is essentially due to temperature changes, i.e. the thermosteric effect (Stammer et al., 2013, Meyssignac et al., 2016). Salinity changes play only a local role. Regional trends of thermosteric sea level can be significantly larger compared to their globally averaged versions (Storto et al., 2018). Except for shallow shelf sea and high latitudes (> 60° latitude), regional thermosteric sea level variations are mostly related to ocean circulation changes, in particular in the tropics where the sea level variations and trends are the most intense over the last two decades. '''CMEMS KEY FINDINGS''' Significant (i.e. when the signal exceeds the noise) regional trends for the period 2005-2019 from the Copernicus Marine Service multi-ensemble approach show a thermosteric sea level rise at rates ranging from the global mean average up to more than 8 mm/year. There are specific regions where a negative trend is observed above noise at rates up to about -8 mm/year such as in the subpolar North Atlantic, or the western tropical Pacific. These areas are characterized by strong year-to-year variability (Dubois et al., 2018; Capotondi et al., 2020). Note: The key findings will be updated annually in November, in line with OMI evolutions. '''DOI (product):''' https://doi.org/10.48670/moi-00241

'''DEFINITION''' The CMEMS IBI_OMI_tempsal_extreme_var_temp_mean_and_anomaly OMI indicator is based on the computation of the annual 99th percentile of Sea Surface Temperature (SST) from model data. Two different CMEMS products are used to compute the indicator: The Iberia-Biscay-Ireland Multi Year Product (IBI_MULTIYEAR_PHY_005_002) and the Analysis product (IBI_ANALYSISFORECAST_PHY_005_001). Two parameters have been considered for this OMI: • Map of the 99th mean percentile: It is obtained from the Multi Year Product, the annual 99th percentile is computed for each year of the product. The percentiles are temporally averaged over the whole period (1993-2021). • Anomaly of the 99th percentile in 2022: The 99th percentile of the year 2022 is computed from the Analysis product. The anomaly is obtained by subtracting the mean percentile from the 2022 percentile. This indicator is aimed at monitoring the extremes of sea surface temperature every year and at checking their variations in space. The use of percentiles instead of annual maxima, makes this extremes study less affected by individual data. This study of extreme variability was first applied to the sea level variable (Pérez Gómez et al 2016) and then extended to other essential variables, such as sea surface temperature and significant wave height (Pérez Gómez et al 2018 and Alvarez Fanjul et al., 2019). More details and a full scientific evaluation can be found in the CMEMS Ocean State report (Alvarez Fanjul et al., 2019). '''CONTEXT''' The Sea Surface Temperature is one of the essential ocean variables, hence the monitoring of this variable is of key importance, since its variations can affect the ocean circulation, marine ecosystems, and ocean-atmosphere exchange processes. As the oceans continuously interact with the atmosphere, trends of sea surface temperature can also have an effect on the global climate. While the global-averaged sea surface temperatures have increased since the beginning of the 20th century (Hartmann et al., 2013) in the North Atlantic, anomalous cold conditions have also been reported since 2014 (Mulet et al., 2018; Dubois et al., 2018). The IBI area is a complex dynamic region with a remarkable variety of ocean physical processes and scales involved. The Sea Surface Temperature field in the region is strongly dependent on latitude, with higher values towards the South (Locarnini et al. 2013). This latitudinal gradient is supported by the presence of the eastern part of the North Atlantic subtropical gyre that transports cool water from the northern latitudes towards the equator. Additionally, the Iberia-Biscay-Ireland region is under the influence of the Sea Level Pressure dipole established between the Icelandic low and the Bermuda high. Therefore, the interannual and interdecadal variability of the surface temperature field may be influenced by the North Atlantic Oscillation pattern (Czaja and Frankignoul, 2002; Flatau et al., 2003). Also relevant in the region are the upwelling processes taking place in the coastal margins. The most referenced one is the eastern boundary coastal upwelling system off the African and western Iberian coast (Sotillo et al., 2016), although other smaller upwelling systems have also been described in the northern coast of the Iberian Peninsula (Alvarez et al., 2011), the south-western Irish coast (Edwars et al., 1996) and the European Continental Slope (Dickson, 1980). '''CMEMS KEY FINDINGS''' In the IBI region, the 99th mean percentile for 1993-2021 shows a north-south pattern driven by the climatological distribution of temperatures in the North Atlantic. In the coastal regions of Africa and the Iberian Peninsula, the mean values are influenced by the upwelling processes (Sotillo et al., 2016). These results are consistent with the ones presented in Álvarez Fanjul (2019) for the period 1993-2016. The analysis of the 99th percentile anomaly in the year 2023 shows that this period has been affected by a severe impact of maximum SST values. Anomalies exceeding the standard deviation affect almost the entire IBI domain, and regions impacted by thermal anomalies surpassing twice the standard deviation are also widespread below the 43ºN parallel. Extreme SST values exceeding twice the standard deviation affect not only the open ocean waters but also the easter boundary upwelling areas such as the northern half of Portugal, the Spanish Atlantic coast up to Cape Ortegal, and the African coast south of Cape Aguer. It is worth noting the impact of anomalies that exceed twice the standard deviation is widespread throughout the entire Mediterranean region included in this analysis. '''Figure caption''' Iberia-Biscay-Ireland Surface Temperature extreme variability: Map of the 99th mean percentile computed from the Multi Year Product (left panel) and anomaly of the 99th percentile in 2022 computed from the Analysis product (right panel). Transparent grey areas (if any) represent regions where anomaly exceeds the climatic standard deviation (light grey) and twice the climatic standard deviation (dark grey). '''DOI (product):''' https://doi.org/10.48670/moi-00254

Level 3, four times a day, sub-skin Sea Surface Temperature derived from AVHRR on Metop satellites and VIIRS or AVHRR on NOAA and NPP satellites, over North Atlantic and European Seas and re-projected on a polar stereographic at 2 km resolution, in GHRSST compliant netCDF format. This catalogue entry presents NOAA-20 North Atlantic Regional Sea Surface Temperature. SST is retrieved from infrared channels using a multispectral algorithm and a cloud mask. Atmospheric profiles of water vapor and temperature from a numerical weather prediction model, Sea Surface Temperature from an analysis, together with a radiative transfer model, are used to correct the multispectral algorithm for regional and seasonal biases due to changing atmospheric conditions. The quality of the products is monitored regularly by daily comparison of the satellite estimates against buoy measurements. The product format is compliant with the GHRSST Data Specification (GDS) version 2.Users are advised to use data only with quality levels 3,4 and 5.

The GEBCO_2020 Grid was released in May 2020 and is the second global bathymetric product released by the General Bathymetric Chart of the Oceans (GEBCO) and has been developed through the Nippon Foundation-GEBCO Seabed 2030 Project. The GEBCO_2020 Grid provides global coverage of elevation data in meters on a 15 arc-second grid of 43200 rows x 86400 columns, giving 3,732,480,000 data points. Grid Development The GEBCO_2020 Grid is a continuous, global terrain model for ocean and land with a spatial resolution of 15 arc seconds. The grid uses as a ‘base’ Version 2 of the SRTM15+ data set (Tozer et al, 2019). This data set is a fusion of land topography with measured and estimated seafloor topography. It is augmented with the gridded bathymetric data sets developed by the four Seabed 2030 Regional Centers. The Regional Centers have compiled gridded bathymetric data sets, largely based on multibeam data, for their areas of responsibility. These regional grids were then provided to the Global Center. For areas outside of the polar regions (primarily south of 60°N and north of 50°S), these data sets are in the form of 'sparse grids', i.e. only grid cells that contain data were populated. For the polar regions, complete grids were provided due to the complexities of incorporating data held in polar coordinates. The compilation of the GEBCO_2020 Grid from these regional data grids was carried out at the Global Center, with the aim of producing a seamless global terrain model. In contrast to the development of the previous GEBCO grid, GEBCO_2019, the data sets provided as sparse grids by the Regional Centers were included on to the base grid without any blending, i.e. grid cells in the base grid were replaced with data from the sparse grids. This was with aim of avoiding creating edge effects, 'ridges and ripples', at the boundaries between the sparse grids and base grid during the blending process used previously. In addition, this allows a clear identification of the data source within the grid, with no cells being 'blended' values. Routines from Generic Mapping Tools (GMT) system were used to do the merging of the data sets. For the polar data sets, and the adjoining North Sea area, supplied in the form of complete grids these data sets were included using feather blending techniques from GlobalMapper software version 11.0, made available by Blue Marble Geographic. The GEBCO_2020 Grid includes data sets from a number of international and national data repositories and regional mapping initiatives. For information on the data sets included in the GEBCO_2020 Grid, please see the list of contributions included in this release of the grid (https://www.gebco.net/data_and_products/gridded_bathymetry_data/gebco_2020/#compilations).

Metagenomic analysis of clams from Sanaga river in Cameroon to describe the virome

Cette couche recense les Zones d’Activités Economiques (ZAE) présentes sur le département de la Charente. Initialement crée par Charente Développement, il s'agit d'un surfacique qui permet d'identifier précisément le contour de ces zones en se calant sur les données du Cadastre.

'''DEFINITION''' The Copernicus Marine IBI_OMI_seastate_extreme_var_swh_mean_and_anomaly OMI indicator is based on the computation of the annual 99th percentile of Significant Wave Height (SWH) from model data. Two different CMEMS products are used to compute the indicator: The Iberia-Biscay-Ireland Multi Year Product (IBI_MULTIYEAR_WAV_005_006) and the Analysis product (IBI_ANALYSISFORECAST_WAV_005_005). Two parameters have been considered for this OMI: * Map of the 99th mean percentile: It is obtained from the Multi-Year Product, the annual 99th percentile is computed for each year of the product. The percentiles are temporally averaged in the whole period (1980-2023). * Anomaly of the 99th percentile in 2024: The 99th percentile of the year 2024 is computed from the Analysis product. The anomaly is obtained by subtracting the mean percentile to the percentile in 2024. This indicator is aimed at monitoring the extremes of annual significant wave height and evaluate the spatio-temporal variability. The use of percentiles instead of annual maxima, makes this extremes study less affected by individual data. This approach was first successfully applied to sea level variable (Pérez Gómez et al., 2016) and then extended to other essential variables, such as sea surface temperature and significant wave height (Pérez Gómez et al 2018 and Álvarez-Fanjul et al., 2019). Further details and in-depth scientific evaluation can be found in the CMEMS Ocean State report (Álvarez- Fanjul et al., 2019). '''CONTEXT''' The sea state and its related spatio-temporal variability affect dramatically maritime activities and the physical connectivity between offshore waters and coastal ecosystems, impacting therefore on the biodiversity of marine protected areas (González-Marco et al., 2008; Savina et al., 2003; Hewitt, 2003). Over the last decades, significant attention has been devoted to extreme wave height events since their destructive effects in both the shoreline environment and human infrastructures have prompted a wide range of adaptation strategies to deal with natural hazards in coastal areas (Hansom et al., 2015). Complementarily, there is also an emerging question about the role of anthropogenic global climate change on present and future extreme wave conditions (Young and Ribal, 2019). The Iberia-Biscay-Ireland region, which covers the North-East Atlantic Ocean from Canary Islands to Ireland, is characterized by two different sea state wave climate regions: whereas the northern half, impacted by the North Atlantic subpolar front, is of one of the world’s greatest wave generating regions (Mørk et al., 2010; Folley, 2017), the southern half, located at subtropical latitudes, is by contrast influenced by persistent trade winds and thus by constant and moderate wave regimes. The North Atlantic Oscillation (NAO), which refers to changes in the atmospheric sea level pressure difference between the Azores and Iceland, is a significant driver of wave climate variability in the Northern Hemisphere. The influence of North Atlantic Oscillation on waves along the Atlantic coast of Europe is particularly strong in and has a major impact on northern latitudes wintertime (Gleeson et al., 2017; Martínez-Asensio et al. 2016; Wolf et al., 2002; Bauer, 2001; Kushnir et al., 1997; Bouws et al., 1996; Bacon and Carter, 1991). Swings in the North Atlantic Oscillation index produce changes in the storms track and subsequently in the wind speed and direction over the Atlantic that alter the wave regime. When North Atlantic Oscillation index is in its positive phase, storms usually track northeast of Europe and enhanced westerly winds induce higher than average waves in the northernmost Atlantic Ocean. Conversely, in the negative North Atlantic Oscillation phase, the track of the storms is more zonal and south than usual, with trade winds (mid latitude westerlies) being slower and producing higher than average waves in southern latitudes (Marshall et al., 2001; Wolf et al., 2002; Wolf and Woolf, 2006). Additionally, a variety of previous studies have uniquevocally determined the relationship between the sea state variability in the IBI region and other atmospheric climate modes such as the East Atlantic pattern, the Arctic Oscillation, the East Atlantic Western Russian pattern and the Scandinavian pattern (Izaguirre et al., 2011, Martínez-Asensio et al., 2016). In this context, long‐term statistical analysis of reanalyzed model data is mandatory not only to disentangle other driving agents of wave climate but also to attempt inferring any potential trend in the number and/or intensity of extreme wave events in coastal areas with subsequent socio-economic and environmental consequences. '''CMEMS KEY FINDINGS''' The climatic mean of 99th percentile (1980-2023) reveals a north-south gradient of Significant Wave Height with the highest values in northern latitudes (above 8m) and lowest values (2-3 m) detected southeastward of Canary Islands, in the seas between Canary Islands and the African Continental Shelf. This north-south pattern is the result of the two climatic conditions prevailing in the region and previously described. The 99th percentile anomalies in 2024 show that during this period, virtually the entire IBI region was affected by positive anomalies in maximum SWH, which exceeded the standard deviation of the historical record in the waters west of the Iberian Peninsula, the Spanish coast of the Bay of Biscay, and the African coast south of Cape Ghir. Anomalies reaching twice the standard deviation of the time series were also observed in coastal regions of the English Channel. '''DOI (product):''' https://doi.org/10.48670/moi-00249

The present data set concerne metabarcoding raw reads produced using 4 different PCR targeting polymerase or capside coding region of the genoyupe I and II of norovirus. Test samples of norovirus with serial dilutions in pure water and after a bio-accumulation in oysters. Sequencing was made after VirCapSeq-VERT approach.