The size and trend of a population is fundamental to the assessment of its conservation status, yet cetacean abundance data are often biased and lack statistical power to detect trends. As a result, the conservation status of many species is unknown and the population-level effects of conservation pressures such as anthropogenic sound cannot be quantified. Failing to account for cetaceans that are unavailable for detection at the surface during abundance surveys will negatively bias estimates of abundance. Analysis of time-depth data revealed that pilot whale dive and surface interval durations, and availability for detection, varied with time of day, but this bias was accurately estimated using the mean dive and surface interval durations. A global analysis of cetacean density estimates compiled from multiple line-transect surveys incorporated covariates describing availability bias, and other sources of variability, to facilitate the detection of underlying temporal trends. Decadal global trends in cetacean density were detected for four species, while significant yearly ocean-scale trends were detected for six families. Exploratory analysis of data compiled from line-transect surveys found some evidence that trends in the density of minke whales and sperm whales in the northeast Atlantic varied between areas with and without seismic survey effort. However, there were insufficient data to clearly identify chronic exposure to anthropogenic sound from seismic surveys as a driver of population change. Analysis of strandings data from the UK and Ireland identified some evidence that harbour porpoise and sperm whale stranding rates were related to seismic survey effort and wind farm construction, but the results were not conclusive. Large-scale cetacean surveys provide valuable information on the density and spatial and temporal distribution of cetaceans that is vital for monitoring populations, but these surveys cannot replace dedicated studies of the population-level effects of sound on cetaceans.

Semi-aquatic mammals have evolved to forage in both aquatic and terrestrial environments, and they generally lack locomotor specialisation for either. Having relatively unspecialised adaptations, some semi-aquatic species are generalist foragers, and their activity and diving patterns provide insight into constraints on their foraging behaviour. The recent miniaturisation and improved accuracy of logging devices allow remote data collection from small (<1kg), shallow-diving species. The development of analytical methods has lagged behind technological advances (and techniques developed for fully aquatic animals do not account for the variability of behaviour typical of semi-aquatic animals and their switching between terrestrial and aquatic environments). I applied and developed novel analytical techniques to identify activities and diving patterns of a semi-aquatic mustelid, the American mink (Neovison vison), fitted with Time-Depth Recorders (TDRs). Using a hidden Markov model (HMM) algorithm allowed me to classify dives into three states to identify clustering, and describe sequential diving patterns by mink. TDRs were used to determine active/inactive periods on the basis of rapid TDR temperature changes, and this method was validated empirically. Having developed this methodology, I applied it to 18 datasets collected from 14 mink in lowland England. Terrestrial activity of mink was positively related to ambient temperature (across both sexes), however aquatic activity, especially diving, appeared to be more influenced by daylight than by temperature. Mink showed intersexual differences, with males being more nocturnal and more active on land, and females more diurnal, and more persistent in diving. There was considerable variability between sexes and individuals. This is the first study to use HMM to classify the dives of a semi-aquatic animal, and the first to use TDR temperature records to identify mammalian activity patterns. These methods will be generally applicable to animals that make rapid transitions between environments and have thus far been difficult to study.

La période juvénile d’espèces longévives demeure peu connue malgré son importance pour la démographie et la conservation des populations. L’objectif de cette thèse a été d’étudier le comportement de dispersion et de nourrissage de 52 juvéniles de trois espèces de prédateurs marins plongeurs des Terres Australes et Antarctiques Françaises (les manchots royaux, les manchots empereurs et les éléphants de mer du Sud) pendant quasiment 1 an après leur indépendance. L’approche a été basée sur l’utilisation de balises retransmettant en direct la localisation et des données de plongée. Les juvéniles de ces trois espèces présentèrent des dispersions sur de très grandes distances dans l’Océan Austral, avec au départ des composantes d‘orientation semblant en partie innées. Le rôle des courants océaniques et des zones frontales est apparu important. Les juvéniles montrèrent aussi une ségrégation spatiale prononcée avec les adultes. Les juvéniles présentèrent d‘impressionnantes capacités de plongée seulement quelques jours après leur départ. Cependant, si leurs capacités de plongée et d‘acquisition de nourriture augmentèrent progressivement avec le temps, elles n‘atteignirent jamais totalement les capacités des adultes. Certains juvéniles ne parvinrent pas à augmenter ces capacités alors que leur environnement devint moins favorable et apparemment décédèrent en mer, vraisemblablement par inanition. La première année en mer apparait alors comme une phase critique puisqu'une mortalité apparente fut observée pour chaque espèce. Cette thèse apporte des éléments de compréhension nouveaux sur l’ontogenèse de la dispersion et de la recherche alimentaire des prédateurs marins plongeurs. / The juvenile phase of long lived-species is poorly understood despite its critical importance for the future of animal populations. Thanks to new bio-technologies, in this thesis we managed to monitor the ontogeny of foraging behaviour in 52 juveniles from 3 deep-diving marine predator species (king penguins, emperor penguins and southern elephant seals) in the French Southern territories over the first year after their independence. The juveniles of these 3 species showed a very large dispersion range over huge distances in the Southern Ocean. Their dispersion was characterized at departure by partially innate behaviour in their orientation preferences. Juveniles showed a strong dependency to the local oceanic currents orientation and frontal zones. More, they showed a spatial segregation with adults. Juveniles were quickly able to dive very deep. Their diving and foraging skills increased progressively with time. However, juveniles never completely reached the efficiency of adults, even after one year at sea. Some juveniles did not manage to increase their foraging skills while their environment became less productive; these juveniles may have died at sea, probably because of starvation. The first year at sea appears thus to be critical for the 3 studied species, as substantial mortality occurred in each case. This thesis presents new information about the ontogeny of dispersion and the foraging behaviour in marine deep-diving predators.

Du fait de l’isolement géographique de l’océan austral et des conditions météorologiques qui y règnent, la collecte de données océanographiques par les moyens conventionnels est particulièrement couteuse dans cette région du globe. Pour pallier à ces difficultés, l’utilisation d’enregistreurs électroniques embarqués sur des prédateurs marins, et notamment sur les éléphants de mer austraux, s’est révélée être une approche intéressante. Les femelles éléphants de mer s’alimentent en grande partie de petits poissons méso-pélagiques bioluminescents, les myctophidés. Leur forte abondance et leur comportement de migration nycthémérale confèrent à ces organismes un rôle écologique de première importance dans l’océan austral. Cependant, la distribution spatiale des proies de l’éléphant de mer, et les processus physiques et biologiques qui influent sur la dynamique de cette distribution sont encore mal connus. Cette thèse se propose d’enquêter sur ces sujets à partir des données à haute fréquence d’échantillonnage collectées par des femelles éléphants de mer. L’analyse du comportement de plongée des femelles éléphants de mer, en relation avec les variations du taux de rencontre de proie dont les données d’accélération permettent d'avoir une estimation, est au cœur des différents travaux développés dans cette thèse. Les résultats obtenus suggèrent notamment, (1) une diminution de l’abondance des proies avec la profondeur ainsi qu’une homogénéisation de leur distribution, (2) une distribution en couches de cette ressource, (3) l’intervention de contraintes verticales délimitant l’étendue verticale de ces couches et ainsi capable de moduler leur densité, (4) au sein des couches, une dispersion relativement importante des proies en comparaison de la portée des capacités de perception du prédateur, et enfin (5) un rôle significatif des tourbillons méso-échelle et de leur bordure sur la structuration de la distribution des ressources alimentaires de l’éléphant de mer durant l’été austral. / Because of the remoteness and harsh meteorological conditions of the southern ocean, data sampling is more costly in this area. Use of electronic devices attached to marine predators (Bio-logging), such as southern elephant seals, has emerged as an interesting approach to cope with this problem. Female southern elephant seals primarily feed on small bioluminescent meso-pelagic fishes called myctophids. Because of their large abundance and of their diel vertical migration behaviour, these organisms have a major ecological importance in the southern ocean. However, the spatial distribution of the elephant seals prey, as well as the bio-physical processes affecting the dynamics of this distribution, are still poorly known. This thesis intends to investigate this issue using high sampling frequency bio-logging data collected by female southern elephant seals. This work is based on the analysis of elephant seals diving behaviour in relation to changes in the occurrence of prey encounter events detected from acceleration data. Our results suggest that (1) prey abundance decreases with depth and that their distribution tend to standardize, (2) prey are distributed into layers, (3) vertical constraints could modulate the prey density by acting on the vertical spread of these layers, (4) prey items are well dispersed in comparison to the perception range of elephant seals, and finally (5) that meso-scale eddies, notably their edges, play a structuring role in the prey distribution during the austral summer.

L’océan austral est un écosystème fragile dont la dynamique est influencée par des variations climatiques qui vont structurer la distribution spatio-temporelle des ressources. L’objectif de cette thèse était d’étudier les stratégies d’acquisition des ressources en proies mises en place par l’éléphant de mer austral face aux contraintes énergétiques (coûts du transport et coûts d’accès à la ressource) et temporelles (temps passé au fond d’une plongée et limite de plongée aérobie) auxquelles il est soumis. L’utilisation d’un ensemble d’enregistreurs de données déployés sur ces animaux a permis de reconstruire en trois dimensions leur plongée, mais également de calculer leur effort de nage, le nombre de proies rencontrées ainsi que leur dépense énergétique. Notre étude montre qu’à l’échelle d’une plongée, les éléphants de mer adaptent leur trajectoire, mais également le temps qu’ils passent au fond, en fonction du nombre de proies rencontrées. Pour des densités locales de proie importantes, ils passent plus de temps au fond, et concentrent leur recherche en zone restreinte, caractérisée par une diminution de la vitesse et une augmentation de la sinuosité horizontale. Au-delà de 550 m, le coût d’accès aux ressources devient supérieur aux coûts d’acquisition ; ils doivent alors faire face à un compromis entre l’accessibilité et la disponibilité en proies. À mesure qu’ils s’alimentent, ces phoques augmentent leur flottabilité, diminuant de surcroît leur dépense énergétique. Cette étude démontre également une structuration spatio-temporelle de cette dépense énergétique qui semble être liée au succès d’alimentation et donc à la distribution des ressources en proies. / The Southern Ocean is a fragile ecosystem whose dynamics are influenced by climate change that will structure the spatio-temporal distribution of resources. The objective of this PhD was to investigate the foraging strategies used by the southern elephant seal, under energetic (cost of transport and costs of access to the resource) and temporal (time at the bottom of a dive and aerobic dive limit) constraints. Using a set of animal-borne data loggers allowed us to reconstruct their three-dimensional path underwater, but also to calculate their swimming effort, the number of prey encountered and their energy expenditure. At the dive level, our study shows that elephant seals adapt their path, but also the time spent at the bottom, depending on the number of prey encountered. For high local prey density, they spent more time at the bottom, and concentrated their foraging effort in areas restricted search, characterized by a decrease in speed and an increase in horizontal sinuosity. Beyond 550 m, the cost of access to resources becomes greater than the cost of acquisition ; they must therefore deal with a trade-off between prey accessibility and availability. While feeding, these seals increase their buoyancy, reducing furthermore their energy expenditure. This study also shows a spatio-temporal structure of the energy expenditure that appears to be related to feeding success and therefore to prey resources distribution.