This thesis provides a detailed study of the diet of various procellariiformes using new molecular approaches. Dietary studies remove fundamental blocks to our understanding of the structure of food webs, and provide insights into the demographic regulation of populations and the structuring of communities. The study species were the Band-rumped Storm-petrel (Hydrobates castro), Bulwer’s petrel (Bulweria bulwerii), Cory’s shearwater (Calonectris borealis) and White-faced Storm-petrel (Pelagodroma marina). The breeding colonies of the Madeiran-archipelago are Important Bird Areas (IBA) in the North-Atlantic, but little is known about the predator-prey relationships of its seabird populations. This probably relates to difficulties associated with obtaining robust prey estimates and the need to develop new methodologies to improving the resolution of species identification. Here, new molecular approaches were developed to recover prey from faeces and stomach contents using DNA-barcoding and high-throughput sequencing (HTS). The results obtained show clear improvements to the identification of the diets of procellariiformes, considerably outperforming morphological analysis, and retrieving prey identities from non-invasive faecal remains. Such approaches further showed that sympatric small seabirds of the sub-tropical NE-Atlantic significantly segregated their resources, while showing similar prey types with the species distributed in the Pacific, indicating that these petrels maintain foraging specialization across their distribution range. Foraging efficiency in seabirds has been widely hypothesized to change according to the moon cycle. Predators either optimise foraging during moonlit nights or reduce foraging effort because less accessible prey migrate downward the water column to avoid visual predators. I tested whether prey composition and diversity differ between moon-phases. However, I found no evidence for a significant influence of the moon on the diet of Bulwer’s petrel, contradicting previous ecological assumptions. The results highlight the potential of DNA methodologies to the understanding of marine food webs and predator-prey relationships and will certainly make important contributions to marine community ecology.

Η παρούσα εργασία εστιάζεται σε ζητήματα που αφορούν στην κατανόηση των παραγόντων που επηρεάζουν τα πρότυπα της αφθονίας των ειδών στις διάφορρες νησιωτικές βιοκοινότητες. Εξετάστηκαν περιβαλλοντικές παράμετροι που ρυθμίζουν τον πλούτο των ειδών διαφόρων ταξινομικών ομάδων σε παγκόσμια κλίμακα, καθώς και η επίδραση των παραγόντων αυτών στις παραμέτρους logc και z της σχέσης έκτασης αριθμού ειδών σε ποικίλα αρχιπελάγη. Για κάθε αρχιπέλαγος υπολογίστηκε η σχέση έκτασης αριθμού ειδών με τη μέθοδο της απλής παλινδρόμησης. Για τη συσχέτιση των παραμέτρων logc και z με τις περιβαλλοντικές παραμέτρους χρησιμοποιήθηκαν ο συντελεστής συσχέτισης Pearson, η μερική συσχέτιση και η πολλαπλή παλινδρόμηση. Με τον ίδιο τρόπο συσχετίστηκε και η αφθονία των ειδών, σταθμισμένη ως προς την έκταση, με τις περιβαλλοντικές παραμέτρους των νησιών. / -

The focus of this research is the study of lagoon ecosystem interaction and adjustment of the lagoon floor morphologies, water dynamics and sequences of change involving the motion of sediment. The aim of the study is to implement a functional mechanism to evaluate and analyse changes in the Lagos Lagoon and its ecosystem, with the objectives: (i) to investigate the extent and impact of urban expansion on the Lagoon coastline and its ecosystem; (ii) to quantify changes in the spatial extent of mangroves by use of satellite images from 1984 to 2016; (iii) to investigate the spatial dynamics of the Lagoon water floor and estimate its flushing time, (iv) to investigate the behaviour and relationship pattern of the Lagoon hydrodynamic parameters;, (v) to collect sediment samples from the Lagoon, analyse their settling behaviour and particle size distribution (PSD) in order to study their spatial evolution and characterisation; and (vi) to initiate a model that can predict the influence of sea level rise on the Lagoon ecosystem. The existing problem of an overcrowded human population in Lagos, the incessant repository of industrial effluence into its Lagoon, and increased flooding from the immediate watershed generate the research questions for this thesis. Lack of studies in the areas of morphodynamics and hydrodynamics on the Lagoon is a gap in the body of coastal knowledge, especially the temporal and long term dynamics of a significant Lagoon like that of Lagos. Understanding the dynamics of the Lagoon will enhance efficient monitoring, sustainable management and hence reveal the great importance the Lagoon preserves for the coastal region. Landsat images (1984 – 2016) of the study area (Lagos Lagoon) and its ecosystem were obtained for some specific data derivations. Land Surface Temperature (LST), NDVI and delineated Lagoon coastline were derived from the images. An Environment for Visualizing Images (ENVI) and a Geographic Information System (GIS) were used to extract land classification information, likewise, the GIS was used to develop a model for investigating the Lagoon coastline changes. With the use of ENVI and GIS software, land classification types were derived with the percentage of the coverage area for each land use classification for the years of study. A novel empirical method was designed to collect in-situ hydrodynamic data for both the dry and wet seasons in 2014, this was correlated and analysed using a case study approach. Also, in-situ bathymetric data was collected in 2014 to join the 2008 available data for studying the changes in the Lagoon water bed morphology. Functional models were used to examine the interaction of the various hydrodynamic information that was studied on the Lagoon. Results and inferences from the study show that the wetland of the system is depleting rapidly with increase urbanisation. In both lateral and vertical directions, the morphological shape of the Lagoon is reducing both in size and depth. The result from the model that investigated the system coastline indicates that reclamation and recession are taking place on the Lagoon coast at an approximate ratio of 4 to 1 whereas, the total surface area has reduced to approximately 204.51km2 as opposed to its approximate area of 208km2 as at the year 2010. The results from the analysis of the Lagoon salinity implies a wide salinity variation between the dry and the wet season; this confirms the system as brackish water in the dry season and freshwater in the wet season. Other inferences reveal the critical point of well-mixed water mass, significant vertical mixing during the wet season and a stable state during the dry season. In overview, the ratio of the Lagoon stratification during the dry season to that of the wet season is approximately 1 to 7 and flushing time of approximately 26 days and 22 days respectively. Lastly, the Lagoon possesses a varying settling velocity that is uniquely related to the diameter of its particles at various spatial locations. This research has been able to provide baseline investigations concerning the morphology and hydrodynamic study of the Lagos Lagoon.

Between 40 % and 50 % of the Earth’s primary production occurs in marine environments, primarily by phytoplankton. The trace metal micronutrients iron, zinc and cobalt are known to exert a significant biological control on phytoplankton productivity by serving as essential active centres in enzymatic processes such as inorganic carbon, nitrogen and phosphorus acquisition. The distributions and biogeochemistries of iron, zinc and cobalt therefore, have the potential to impact upon the global carbon cycle and hence climate. This research involves investigations into the biogeochemical cycling of iron, zinc and cobalt in the Atlantic Ocean. Iron measurements were conducted during October and November 2009 to determine the distribution and biogeochemistry of iron in the upper water column of the Atlantic Ocean along an Atlantic Meridional Transect (AMT-19). In addition, deck board incubation experiments were performed to establish the role of iron in controlling rates of di-nitrogen (N2) fixation in the North Atlantic. The distribution patterns and biogeochemistries of iron, zinc and cobalt in the South Atlantic at 40° S were determined during the UK GEOTRACES Section GA10 cruises of October 2010 and December 2011 to January 2012. Iron distributions in North Atlantic surface waters were primarily controlled by the transport and deposition of atmospheric dust particles. In the North Atlantic, elevated surface dissolved iron concentrations (0.50 - 1.65 nM) were associated with wet and dry deposition of Saharan dust between 4 and 29° N. To the south of 4° N, surface dissolved iron concentrations were markedly reduced (0.14 nM) indicating that high precipitation rates in the Inter-Tropical Convergence Zone (4 - 10° N) formed a barrier to the large-scale transport of Saharan dust particles, thus iron, to the South Atlantic. Here, the low surface dissolved iron concentrations were balanced by a total dissolvable iron flux out of the surface mixed layer (3.2 µmol m-2 y-1) that was comparable to atmospheric input estimates. Nitrogen fixation rates in the North Atlantic were highest (0.3 – 1.1 nmol L-1 d-1) where surface dissolved iron concentrations were elevated (1.02 nM) and decreased with increasing latitude as iron decreased. Hence, iron variability in the North Atlantic was sufficient to influence nitrogen fixation over a large spatial scale. In the South Atlantic Ocean at 40° S, the vertical and horizontal distributions of dissolved zinc and cobalt showed distinct gradients associated with the water masses present. Zinc concentrations ranged from 15 pM in open ocean surface waters to 8 nM in Antarctic Bottom Waters, whilst cobalt ranged from 2 pM to 80 pM in intermediate waters and was scavenged in deeper waters. Growth limiting mixed layer zinc concentrations resulted from the lack of a direct return path for zinc to the South Atlantic pycnocline with Sub-Antarctic Mode Water. Low zinc in this return path was identified by a linear correlation between zinc and soluble reactive phosphorus that showed a kink at ~ 500 m, much deeper than that observed in other oceanographic regimes. A seasonal study in the Southeast Atlantic revealed that the depletion of zinc over spring-summer periods resulted in an increase in the nutritional importance of cobalt and a shift towards phytoplankton with a cellular preference for cobalt over zinc and/or the ability to co-substitute these two trace metals at the molecular level. These key findings demonstrate the physico-chemical and biological influences that interact to control the distributions and biogeochemistries of iron, zinc and cobalt across diverse oceanographic regimes of the Atlantic Ocean, provide the first examination of zinc and cobalt biogeochemistries along the productive 40° S parallel and highlight the need for additional research in this region.

No description available.

Marine predators such as seabirds, cetaceans, turtles, pinnipeds, sharks and large teleost fish are essential components of healthy, biologically diverse marine ecosystems. However, intense anthropogenic pressure on the global ocean is causing rapid and widespread change, and many predator populations are in decline. Conservation solutions are urgently required, yet only recently have we begun to comprehend how these animals interact with the vast and dynamic oceans that they inhabit. A better understanding of the mechanisms that underlie habitat selection at sea is critical to our knowledge of marine ecosystem functioning, and to ecologically-sensitive marine spatial planning. The collection of studies presented in this thesis aims to elucidate the influence of biophysical coupling at oceanographic fronts – physical interfaces at the transitions between water masses – on habitat selection by marine predators. High-resolution composite front mapping via Earth Observation remote sensing is used to provide oceanographic context to several biologging datasets describing the movements and behaviours of animals at sea. A series of species-habitat models reveal the influence of mesoscale (10s to 100s of kilometres) thermal and chlorophyll-a fronts on habitat selection by taxonomically diverse species inhabiting contrasting ocean regions; northern gannets (Morus bassanus; Celtic Sea), basking sharks (Cetorhinus maximus; north-east Atlantic), loggerhead turtles (Caretta caretta; Canary Current), and grey-headed albatrosses (Thalassarche chrysostoma; Southern Ocean). Original aspects of this work include an exploration of quantitative approaches to understanding habitat selection using remotely-sensed front metrics; and explicit investigation of how the biophysical properties of fronts and species-specific foraging ecology interact to influence associations. Main findings indicate that front metrics, particularly seasonal indices, are useful predictors of habitat preference across taxa. Moreover, frontal persistence and spatiotemporal predictability appear to mediate the use of front-associated foraging habitats, both in shelf seas and in the open oceans. These findings have implications for marine spatial planning and the design of protected area networks, and may prove useful in the development of tools supporting spatially dynamic ocean management.

The Mediterranean biocoenosis of infralittoral pebbles has been poorly studied and very little information is available on the physical characteristics of pebble beds, on the diversity of the associated assemblages, on the spatial and temporal variation in assemblage structure, or on interactions between the physical and biotic components. The present study was therefore carried out to characterise pebble-bed assemblages as a first step towards understanding the ecological dynamics of these habitats. Preliminary surveys were made along the low-lying coasts of the Maltese Islands to map the occurrence of pebble-bed habitats. Fifteen locations with pebble coverage >25 m² were chosen for study and benthic sampling was undertaken between July–September 2011; water samples were also collected on a monthly basis. Five shallow sites were sampled for biota again at six-month intervals until April 2013. The pebble beds were characterised in terms of environmental parameters and biotic composition. A total of 62,742 individuals belonging to 360 macrofaunal taxa were recorded (total sampling area: 16 m²). Polychaetes, crustaceans and molluscs were the most common faunal groups. The recorded species included the endemic gastropod Gibbula nivosa, and the first central Mediterranean records of three gobiid species. Three distinct pebble-bed types were characterised based on physical and biological features: shallow beds occurring in rocky coves, beds found within creeks or seagrass meadows, and beds located in harbour environments; amendments to internationally used benthic habitat classification schemes have been proposed, since only a single category of pebble-bed habitats is currently recognised in these. A significant seasonal reduction in species richness and abundance was recorded from shallow sites, related to the higher level of disturbance occurring during winter storms. Analysis of diversity patterns in harbour sites indicated that a high richness per site and between-site variation in species composition led to the observed high diversity. Site richness was associated with fine-scale structural complexity, while environmental characteristics were correlated with variation in assemblage structure over a broad range of spatial scales. These findings suggest that pebble beds have a higher conservation value than generally thought. The biologically derived habitat classification scheme and knowledge on assemblage-environment relationships derived from the present work will be useful to inform and guide management decisions concerning these pebble-bed habitats.

The coral holobiont contains diverse communities of bacteria that play a role in the maintenance of coral ecosystems, however little is known about the structure and conservation of the host-bacterial relationship. Declines in coral ecosystems have been partly attributed to outbreaks of disease in tropical and sub-tropical regions, which have been linked to increasing temperatures. Bacteria are thought to play a role in some of these diseases, however little is understood about the mechanisms behind disease progression or the series of events involved in the shifts of coral-associated bacteria from conserved, potentially beneficial communities to those including potential pathogens. Investigations into a cold-water gorgonian coral, Eunicella verrucosa, have shown similar bacterial communities to those present in tropical and sub-tropical regions, with high proportions of Spongiobacter and Endozoicomonas genera, suggesting an important role for these associates in the coral holobiont irrespective of location or the presence of zooxanthellae. A shift in bacterial community with disease was also shown, with suggestions that sedimentation and depth may affect the extent of bacterial community alteration. With the increasing knowledge that bacteria exhibit elaborate systems of intercellular communication (quorum sensing; QS) to allow a population response and to control the expression of genes for pathogenesis, antibiotic production and biofilm formation, the present study showed the presence, stability and species-specific nature of N-acyl-homoserine lactones (AHLs; most prevalent type of QS) in situ in a number of coral species. This finding and a high proportion of coral-associated bacteria found producing AHLs suggests an important role for QS in the coral holobiont. Further, AHL signals have been shown to break down in Stylophora pistillata kept at 30 °C, which coincided with a drop in bacterial numbers and a changing bacterial community which included more quorum quenching (QQ; AHL-degrading) bacteria. Temperature was shown to affect AHL-QS in a strain-dependent manner in E. verrucosa isolates, suggesting that the decline seen in S. pistillata is not primarily an effect of temperature. Further experiments with three species of soft coral (Sinularia sp., Discosoma sp. and a gorgonian) showed no such decline in AHLs at 30 °C and instead show a coral-specific response to temperature, including the ability of coral extracts to inhibit putative pathogens. A decline in the ability of crude coral extract to degrade AHLs in the Discosoma sp. and the high QQ activity in crude extract from all three species suggests a role for QQ in the coral holobiont, confirmed by the high percentage of QQ found in coral-associated bacterial isolates; again suggesting a role in the maintenance of bacterial communities. Further investigations attempted to link QS and QQ to antagonism and susceptibility in coral associated bacteria; however these results were inconclusive. The thesis concludes that priority should be given to further research of QS and QQ in the coral holobiont, which will reveal important knowledge that may lead to future mitigation of some forms of coral disease.

Climate change is a global issue and the effects on fish populations remain largely unknown. It is thought that climate change could affect fish at all levels of biological organisation, from cellular, individual, population and community. This thesis has taken a holistic approach to examine the ways in which climate change could affect fish from both tropical, marine ecosystems (Great Barrier Reef, Australia) and temperate, freshwater ecosystems (non-tidal River Thames, Britain). Aerobic scope of coral reef fish tested on the Great Barrier Reef was significantly reduced by just a 2°C rise in water temperature (31, 32 and 33°C, compared to the current summer mean of 29°C) due to increased resting oxygen consumption and an inability to increase the maximal oxygen uptake. A 0.3 unit decline in pH, representative of ocean acidification, caused the same percentage loss in aerobic scope as did a 3°C warming. Interfamilial differences in ability to cope aerobically with warming waters will likely lead to changes in the community structure on coral reefs with damselfish replacing cardinalfish. Concerning Britain, there is evidence of gradual warming and increased rainfall in winter months over a 150 year period, suggesting that British fish are already experiencing climate change. It was evident from an analysis of a 15 year dataset on fish populations in the River Thames, that cyprinid species displayed a different pattern in biomass and density to all the non-cyprinid fish population, suggesting that there will be interfamilial differences in responses to climate change. Using a Biological Indicator Approach on the three-spined stickleback, Gasterosteus aculeatus, a 2°C rise in water temperature resulted in a stress response at the cellular and whole organism level. A 6°C rise in temperature resulted in a stress response at the biochemical level (higher cortisol and glucose concentrations), cellular level (higher neutrophil: lymphocyte ratio) and whole organism level (higher ventilation rate and lowered condition factor, hepatosomatic index and growth). G. aculeatus is considered to be temperature tolerant; therefore these results indicate that climate change may prove to be stressful for more temperature-sensitive species. This study has demonstrated that climate change will have direct effects on fish populations, whether they are in temperate regions such as Britain or in tropical coral reefs, but with strong interfamilial differences in those responses.

Στην εργασία αυτή γίνεται μελέτη της κατανομής ραδιοϊσοτόπων και βαρέων μετάλλων σε ιζήματα του Πατραϊκού κόλπου, δίνοντας έμφαση στις κατακόρυφες συγκεντρώσεις του τεχνητού ισοτόπου 137Cs. Στο Α’ μέρος πραγματοποιείται βιβλιογραφική επισκόπηση σχετικά με τις πηγές και τις συγκεντρώσεις του 137Cs στον Ελληνικό και Ευρωπαϊκό χώρο, επικεντρώνοντας το ενδιαφέρον στις επιπτώσεις από το ατύχημα του Chernobyl το 1986. Ακόμα, γίνεται σύγκριση των τιμών του 137Cs στα θαλάσσια ιζήματα και στην υδάτινη στήλη ανάμεσα σε διαφορετικές περιοχές της Ελλάδας. Στο Β’ μέρος μελετώνται δύο πυρήνες, που λήφθηκαν με κιβωτολήπτη (box corer) από τον Πατραϊκό κόλπο, σε βάθη 35 και 95 μέτρων αντίστοιχα. Ειδικότερα, γίνονται κοκκομετρικές αναλύσεις, καθώς και μετρήσεις 14 βαρέων μετάλλων με τη μέθοδο Three Steps (BCR). Ακόμα, μετρώνται οι συγκεντρώσεις του 137Cs και του 40K με χρήση φασματομετρίας ακτινών γ σε ανιχνευτή υψηλής καθαρότητας γερμανίου (HPGe). Τα αποτελέσματα των παραπάνω μετρήσεων παρουσιάζουν μια συσχέτιση του λεπτότερου κοκκομετρικού κλάσματος με υψηλότερες συγκεντρώσεις σε 137Cs. Ακόμα, οι τιμές του 137Cs παρουσιάζουν μια ομογενοποίηση στα ανώτερα 18 cm και των δύο πυρήνων, που αποδίδεται όχι τόσο σε φυσικές διεργασίες αλλά κυρίως σε ανάδευση των ιζημάτων από αλιευτικά εργαλεία (μηχανότρατες υποδομής πυθμένα). / The present study refers to the vertical distribution of radionuclides and heavy metals in the marine sediments of Patras gulf, focusing on the concentrations of the artificial isotope 137Cs. The first part consists of a review of the sources and concentrations of the 137Cs in Greece and Europe, focusing on the impacts of the Chernobyl accident (1986). Moreover, a comparison between the 137Cs activities in the marine sediments and water column in different areas around Greece takes place. In the second part, two cores that were sampled in Patras gulf at depths of 35 and 95 meters with a box corer are studied. Particularly, vertical grain size distribution and concentrations of 14 heavy metals determined by use of the BCR methodology are presented. Furthermore, 137Cs and 40K activities that were determined by γ-ray spectrometry with an HPGe detector. The results showed a correlation between the fine sediments and the higher 137Cs activities and moreover, a homogenization of its activities in the upper 18 cm of both cores. The homogenization was interpreted as a result of the resuspension of the surface sediments mainly caused by trawl fisheries than natural phenomena.