The ICES International Bottom Trawl Survey (IBTS) quarter 3 (Q3) data, Dutch Beam Trawl Survey (BTS) Q3 data, and ICES stock assessment data were analysed to model the catchability of each 1-cm size class of demersal fish caught in the Q3 IBTS. Estimates of catchability were generally low, suggesting that raw trawl survey density data seriously underestimated actual densities.

En Guinée, le constat a été établi par divers auteurs que l’intensification de l’exploitation des ressources démersales sur ces dernières décennies a induit une baisse générale de leur abondance. Cette intensification est supposée avoir induit également des modifications de la structure multi-spécifique et fonctionnelle des assemblages de poissons de cette zone, mais peu d’études ont permis d’en juger jusqu’ici, la plupart des travaux antérieurs sur ces ressources ayant concerné des approches strictement mono-spécifiques et des approches strictement taxonomiques. Dans ce contexte, l’objectif de cette thèse est de contribuer à un diagnostic écosystémique plus complet de l’état actuel des ressources marines guinéennes et de déterminer en particulier si la diversité taxonomique et fonctionnelle des assemblages de poissons a été affectée par la pêche.Les données de campagnes de chalutages scientifiques collectées sur le plateau continental guinéen entre 1985 et 2012, les statistiques sur les captures de pêche et dix-sept traits fonctionnels liés aux fonctions de locomotion et d’acquisition de nourriture de 50 espèces de poissons démersaux sont étudiés à travers divers indicateurs de diversité pour analyser l’impact de la pêche.Les résultats montrent que l’intensification de la pêche a eu des effets significatifs sur certaines caractéristiques générales du peuplement en question. Depuis 1985, on observe ainsi une baisse de la densité et du niveau trophique moyen des poissons ainsi qu’un turnover des dominances, par lequel les espèces principales, à forte valeur commerciale, caractérisées par des masses corporelles importantes et une croissance lente sont progressivement remplacées par des espèces de plus petites tailles à moindre valeur commerciale et à croissance rapide. On observe également une baisse significative de la richesse fonctionnelle dont l’évolution conforte les résultats obtenus à partir des évaluations taxonomiques et confirme que l’écosystème côtier du plateau continental est perturbé en lien avec la pression de pêche. / In Guinea, was highlighted by various authors that the intensification of the exploitation of demersal resources over recent decades has led to a general decline in abundance. This intensification is supposed to have also induces changes in the specific and multi-functional structure of the fish assemblages of this zone, but few studies have Judging far, most previous work on these resources with relevant strictly mono-specific approaches and strictly taxonomic approaches. In this context, the aim of this thesis is to contribute to a more complete ecosystem diagnosis of the current state of the Guinean marine resources and in particular whether the taxonomic and functional diversity of fish assemblages was affected by fishing. Data from scientific trawl surveys collected on Guinean continental shelf between 1985 and 2012, statistics on catches of fishing and seventeen functional traits related to locomotion functions and food purchase 50 groundfish species are studied diversity through various indicators to analyze the impact of fishing.The results show that the intensification of fishing has had significant effects on certain general characteristics of the population in question. Since 1985, we thus observed a drop in the density and the mean trophic level of fish and a turnover of dominance, whereby major species of high commercial value, characterized by substantial body masses and slow growth are gradually replaced by species of smaller sizes at lower commercial value and rapid growth. There is also a significant decrease in functional richness whose evolution confirms the results obtained from the taxonomic assessments and confirms that the coastal ecosystem of the continental shelf is disrupted in connection with fishing pressure.

Ecosystem-level changes have taken place in the Mediterranean Sea over the last decades due to both anthropogenic interferences and natural perturbations. Compared to the western Mediterranean Sea, influences of these factors especially on flora and fauna characteristics are much more dramatic and intense in the eastern part, particularly in the northeastern Levant Sea where the study area is located. In this study, life history traits of some core species (both native and immigrant) occupying the continental shelf of the northeastern Levant Sea were studied in this changing ecosystem to improve limited ecological understanding of the demersal fish assemblages of the northeastern Levant Sea. For this purpose, the annual patterns in allocation and utilization of energy in demersal fish species, temporal and bathymetrical trends in fish distribution with respect to biological requirements of the species and strategies adapted by the species in growth, reproduction and energy storage were investigated by examining growth parameters, biological indices and abundance and biomass variations. Influences of environmental variables on spatiotemporal distribution and biological characteristic of Mullus barbatus were also explored by generalized additive models. Biological data were collected at monthly intervals between May 2007 and May 2010 by trawl sampling while sample collection of environmental variables (temperature and salinity) was performed from December 2008 to May 2010. Results of this study reveal that the components of the demersal fish assemblage in the region fulfill their biological activities within a short period of time when the highest productivity is reached in the area. Moreover, results indicate that within this short period of time, some native components of the demersal fish assemblages studied (Mullus barbatus and Pagellus erythrinus) exhibit strategies such as fast growth, early maturation, short reproduction season, secondary spawners to cope with the environmental peculiarities. On the other hand, the successful exotic colonizers develop strategies as well but these successful immigrants also use time (Lagocephalus suezensis) and space (depth) (Upeneus pori) slot that the native species avoid. In some of the species examined (Mullus barbatus and Lagocephalus suezensis), growth is fast, sexual maturity is early, reproduction period is short, and reproduction potential is high. With the peculiar environmental condition, these life history traits are attributed to the &ldquo / r-strategy&rdquo / of the species. In this study, generalized additive models of Mullus barbatus explain 81.5 % variations in Gonadosomatic Index (GSI), 55.2 % in Hepatosomatic Index (HSI) and 43.9 % in Condition Factor (K). The time component in the GAM model captures the same cyclic pattern observed in GSI of Mullus barbatus. Besides, The GAM results suggest that the highest GSI values associated with the bottom water temperature are between 18 &ndash / 19 &deg / C while the partial effect of bottom salinity is at 38.7 psu. A positive effect of depth on GSI of the species starts after 60 meters depth and increasing trend continues until 125 meters depth and then decreases. The HSI results are almost identical to GSI outputs indicating that the effects of the parameters concerned act in a similar manner. The results of the GAM models failed to explain influence of environmental parameters on vertical and seasonal distribution of adult Mullus barbatus. However 83.5 % variances were explained in distribution of juveniles. The salinity and temperature have the highest impact on the distribution of juveniles among the parameters evaluated. The results indicate that the occurrence of Atlantic Water in the area has a positive influence on M. barbatus, particularly on the recruits through either by its low salinity or by another factor associated with this water mass. The vertical distribution range are set by the high temperatures (&gt / 27 &deg / C) at the shallow depths during summer and the low temperatures on the shelf break zone (&lt / 16 &deg / C). A comparison of vertical abundance distribution of Mullus barbatus and the vertical temperature variations indicate that the species may tolerate up to 27 &deg / C and then individuals move to the deeper depths so that to the cooler waters when the temperature exceeds their tolerance limit. As well as the life history traits adopted by the species, there are some other factors providing advantages to the species. The fisheries regulations, particularly the time limits applied in the area are in favor of the species especially of pre-recruits. In the study area the pre-recruitment phase and summer YOY aggregations in shallow waters of most species studied in this thesis take place during a time when the fishing season is closed.

Knowing where species are and understanding why is paramount for developing relevant and sustainable conservation and resource management strategies. The need for this information is becoming urgent as fishing activity, resource extraction and the impacts of coastal developments continue to put marine resources under increasing pressure. As logistical and financial constraints can restrict our ability to collect data in the marine environment, the ability to predict distributions based on known associations with different environmental variables would enhance our capacity to manage these resources. Before attempting to predict the distribution of species and groups of species, the underlying species-environment relationships must be examined to determine whether associations between species and the environment can: (i) be identified, (ii) be used to develop models that can accurately predict distributions, and (iii) are general enough to allow accurate predictions beyond the sampled area. Most studies to date have compared the composition of fish assemblages between sites to determine how different environmental variables influence distribution. While widely applied, these methods do not consider how individual species respond to multiple environmental gradients and they lack the ability to predict distributions across different combinations of variables along those gradients. This lack of prediction also limits our capacity to assess what marine biodiversity is presently threatened by global, regional, and local human pressures on marine ecosystems. '...' Thus, summarising and modelling species data at higher levels would result in models with poorer predictive accuracy and a loss of ecological information. The generality of the species-environment relationships defined by the models were assessed by evaluating the transferability of models between different areas. Models developed from data collected over a wider geographic extent could more accurately predict the distribution of species across a smaller spatial extent than vice versa. This indicated that while general theories of the ecology of temperate demersal fish can be defined, the actual patterns of distribution may vary from site to site, suggesting caution when using predictions beyond the sampled area for management purposes. Overall, species distribution modelling identified how different species and groups of species responded to the combined influence of multiple environmental gradients and was able to accurately predict distributions based on the defined associations. Their application has led to a greater understanding of the species environment relationships and will help to identify those areas that may be important for conservation. Their predictive ability will allow general predictions of distribution of fish species across unsurveyed areas and provides the ability to assess the potential impact from implementing different policy and management strategies.

Haul-by-haul steam trawler catch and effort data for 1918�23, 1937�43 and 1952�57, which covers a large portion of the history of steam trawling in the Australian South East Fishery, were examined in detail for the first time. There were 64,371 haul records in total. The catch-rate for all retained catch combined shows a strong decline overall, with a brief recovery during World War II, probably due to increased retention of previously discarded species. The fishing fleet moved to more distant fishing grounds and deeper waters as the catch-rate declined. The catch-rates of the main commercial species followed a similar pattern in a number of regions within the fishery. The catchrate of the primary target species � tiger flathead (Neoplatycephalus richardsoni) � dropped considerably from the early, very high, catch-rates. Chinaman leatherjacket (Nelusetta ayraudi) and latchet (Pterygotrigla polyommata) � species that were apparently abundant in the early years of the fishery � virtually disappeared from catches in later years. The appearance of greater catches of jackass morwong (Nemadactylus macropterus), redfish (Centroberyx affinis), and shark/skate during the war and afterwards was probably due to increased retention of catches of these species. The disappearance of certain species from the catch may be due to high fishing pressure alone, or to a combination of fishing pressure, changes in the shelf habitat possibly caused by the trawl gear, and environmental fluctuations. Catch-rates in weight per haul per species were standardised to annual indices of abundance using a log-linear model. Standardised annual index trends for flathead, latchet and leatherjacket indicate a strong to severe decline over the period covered by the data. All species showed seasonal patterns, but the peak season varied depending on the species. The distribution of standardised catch-rate by area also differed greatly by species, and no single area showed consistent differences across all species. Day trawls caught more flathead, redfish and latchet, while night trawls caught more morwong and leatherjacket. Moon phase had less influence on catch-rates than the other factors examined. Correlation of annual index trends with a number of annual mean environmental factors was examined and no strong correlations were found. Annual catches of the major commercial trawl species on the SE Australian shelf were estimated from recorded total trawl catches, catch species composition from subsamples and estimates of the rate of discarding. These annual catches, standardised indices of abundance and biological population parameters were used in single-species stock reduction models to estimate absolute biomass trends. Biological population parameters and the biomass estimates were used to calculate management reference point fishing mortality rates F0.1, Fspr30 and Fmsy. Results showed that simple plausible population models can be constructed that account for catches over the long period of time from 1915 to 1961. Simple mass-balance ecosystem models were built for the demersal community of the SE Australian shelf for 1915 and 1961 using the Ecopath software. Model inputs were consistent with a more comprehensive SE marine ecosystem model in development by CSIRO. The models demonstrate that biomass estimates produced by the single species stock reduction models can be consistently integrated into simple plausible massbalance ecosystem models. Modern stock assessments for the main commercial species in this fishery today mostly used data collected since about 1985. Abundance indices and total catch estimates from this study have been used in the most recent assessments for tiger flathead and morwong, allowing construction of the exploitation history for these species spanning almost 100 years. Use of the historical information has increased confidence in the estimates of the modern stock assessments � particularly management reference points, and has allowed us to quantify changes in fish abundance that have simply been documented anecdotally in the past.

Marine and coastal ecosystems are subject to diverse and increasingly intensive anthropogenic activities, making understanding cumulative effects critically important. However, accurately accounting for the cumulative effects of human impacts can be difficult, with the possibility of multiple stressors interacting and having greater impacts than expected, compounding direct and indirect effects on individuals, populations, communities and ecosystems. Assessment of multiple stressors therefore requires extensive scientific research that directly tests how single or multiple ecological components are affected by stressors, both singly and when combined, and as a consequence, cumulative effects assessments are now increasingly included in environmental assessments. Currently, there is a need to assess these at larger spatial scales, with additional research also urgently needed on the responses of ecological components, processes and functions to single and cumulative stressors. As cumulative environmental impacts could be better addressed by regional stressor effects assessments that combine methods for predicting multiple pressures on ecosystem recovery alongside degradation, this study used several separate approaches that can be used in parallel to give support for local management measures. I tested four completely different methods - a range of multi-metric indices, a food web model (Ecopath), a predictive model (Ecosim) and a Bayesian Belief Network model. Each approach was tested and compared in two shallow water estuarine systems, in Scotland and England, initially concerning the impact of nutrient enrichment and subsequent recovery and was followed by an investigation of how the addition of multiple stressors (nutrient levels, temperature and river-flow rates) would impact the future state of each system. The response to stressors was highly context dependent, varying between and within geographic locations. Overall, each of the four different approaches complemented each other and gave strong support for the need to make big reductions in the pressures and to consider trade-offs between impacting pressures. The models and tools also indicate that in order to reach an improved overall environmental state of each ecosystem, a focus on nutrient reductions are likely to be the most effective of the controls on stressors explored and that cumulative effects of the management of nutrient inputs and increased water temperatures and river-flow are likely to exist.