2bRAD genotyping will be used to estimate genetic diversity and connectivity among populations of Sabellaria alveolata. We will relate population genetic parameters with reef state characteristics.

L’objectif général de ce projet de thèse est d’analyser et d’évaluer les données sources (actuelles et potentielles) des matrices de changements d’occupation du sol afin d’améliorer la robustesse de l’inventaire. Il s’agit d’expertiser par une démarche scientifique la pertinence des travaux réalisés annuellement pour l’inventaire UTCATF. En particulier, il s’agit de comprendre les causes des incertitudes des données sources ; compiler les données disponibles et leurs métadonnées ; étudier qualitativement les dynamiques paysagères décrites ; et redéfinir un cadre méthodologique permettant d’estimer des taux de changements plus pertinent.

Frise chronologique des millésimes de modes d'occupation des sols produits par les régions françaises et par le programme Corine Land Cover.

Larvae from Pacific oyster, Manila clam, European abalone and great scallop were subjected to two temperatures and two pH over the course of early development. RNAseq data was collected in order to evaluate which genes are modulated in response to stress.

Process-driven seafloor habitat sensitivity (PDS) has been defined from the method developed by Kostylev and Hannah (2007), which takes into account physical disturbances and food availability as structuring factors for benthic communities. It is a conceptual model, relating species’ life history traits to environmental properties. Physical environment maps have been converted into a map of benthic habitat types, each supporting species communities with specific sensitivity to human pressures. It is based on two axes of selected environmental forces. The "Disturbance" (Dist) axis reflects the magnitude of change (destruction) of habitats (i.e. the stability through time of habitats), only due to natural processes influencing the seabed and which are responsible for the selection of life history traits. The "Scope for Growth" (SfG) axis takes into account environmental stresses inducing a physiological cost to organisms and limiting their growth and reproduction potential. This axis estimates the remaining energy available for growth and reproduction of a species (the energy spent on adapting itself to the environment being already taken into account). It can be related to the metabolic theory of the ecology. The process-driven sensitivity (PDS) can be seen as a risk map that combines the two previous axes and reflects the main ecological characteristics of the benthic habitats regarding natural processes. Areas with low disturbance are areas with a naturally low reworking of the sediment, allowing the establishment of a rich sessile epifauna community, with K-strategy species. Areas with low SfG means that the environmental factors, even though there are not limiting, are in lower values, i.e. that it imposes a cost for species to live. In areas combining low disturbance and low SfG, big suspension-feeder species with long life and slow growth can often be found: these species are more vulnerable in case of added disturbance.

The BEAT+ tool builds on the EEA assessment tools developed and applied in the context of assessing the degree of contamination (CHASE+), eutrophication (HEAT+) and biodiversity (BEAT+) in Europe's seas. BEAT+ makes use of the same data sets and threshold values used in these assessments but recombines these in a new framework that addresses 'biodiversity condition'. BEAT+ has been designed to provide an assessment of the spatial variability of a range of biodiversity components by combining existing biodiversity indicators. The tool integrates data from normalised indicators to identify worst case status measures for different biodiversity components. The results are then linked to a standard gridE based Spatial Assessment Unit (SAU) which is used both for biodiversity and for pressures assessments (Andersen et al., 2014). These grid-based SAUs not only allow alignment of indicators for biodiversity and for pressures but provide a means for combining large assessment areas (e.g. for wide‐ranging species) with point data collected from biological surveys e.g. WFD monitoring. BEAT+ tool works by calculating a Biological Quality Ratio (BQR) which is an aggregated score of indicator outcomes within a grid square. To allow objective comparison, the indicator outcomes are normalised to a scale of 0 to 1, with five status classes at equal intervals on that scale (from Bad starting at 0, Poor at 0.2, Medium at 0.4, Good at 0.6 and High at 0.8). By this means, indicators based on different biological criteria can be aggregated in a consistent way. This metadata refers to dataset providing the results of classification of biodiversity status using the BEAT+ tool. The status is evaluated in five classes, where High and Good are recognised as ‘non-problem areas’ and Moderate, Poor and Bad are recognised as ‘problem areas’. The dataset covers: - BQR Assessment of all marine mammals combined (mainly focused on coastal and relatively stable inshore populations of seals, dolphins and porpoises) - BQR Assessment of seabirds and wading birds - BQR Assessment of commercial fish (as these have agreed targets defined on biomass and fishing mortality) - BQR Assessment of pelagic habitats - BQR Assessment of benthic habitats - BQR Assessment of worst-performing biodiversity groups - An overall synthesis of the Biological Quality Ratios (BQR) values (showing which are the worst -lowest- BQR values in each assessment grid cell. The ‘worst’ value is used here to identify the biological group most at risk, rather than averaging over all groups to avoid over-­emphasis on groups with more intensive monitoring). As reference, please consult the ETC/ICM Report 3/2019: Biodiversity in Europe's seas: https://www.eionet.europa.eu/etcs/etc-icm/products/biodiversity-in-europes-seas. The indicator BEAT+ Integrated Assessment Worst Case BQR has been used in the EEA report 17/2019 "Marine Messages II": https://www.eea.europa.eu/publications/marine-messages-2.

Shom is the national referent for the level of the sea in situ on all areas under French jurisdiction. In this capacity, he assures under the acronym REFMAR different coordination functions in the collection and dissemination of public data related to water level observations, in order to promote their use in multiple applications within the framework of international recommendations.

scRNA-seq reads from a Pacific oyster (Crassostrea gigas) hemocyte preparation. Hemocytes were isolated from a unique immunologically naive animal (Ifremer Standardized Animal, 18 months) and single-cell drop-seq technology was applied to 3,000 individual hemocytes.

Individuals from 5 populations were kept in common garden conditions in order to examine acclimation and adaptation to temperature in the honeycomb worm. Worms were exposed to 5 temperature treatments, and collected for RNAseq analysis. Gene expression patterns were then examined.

Analysis of tuna stomach contents