This study assessed the importance of overwash and breaching events on the ichthyofaunal community structure in the medium-sized temporarily open/closed Mpekweni Estuary located on the southeast coastline of southern Africa. The fish in the littoral zone of the estuary were sampled using a 5m seine net while the channel region was sampled using two nets, a smaller meshed 30m seine net to target the estuarine spawning species and the juvenile estuarine-dependant marine spawners, and a larger meshed 50m seine net to target the larger marine and freshwater spawning species. Intensive monthly sampling over two years provided data on selected physico-chemical and biological parameters. During the two year sampling period from November 2005 to October 2007 the estuary breached in late July 2006 and remained open till the sandbar re-formed across the mouth in late December 2006. Thus, sampling encompassed three open/closed phases 1) initial closed period, 2) open period and 3) re-closed period after the berm was re-formed. The open period was divided into two phases 1) the out-flow phase and 2) the tidal phase. A total of 36 fish species representing 19 families were sampled using the various seine nets employed during the investigation. In the littoral zone, the estuarine spawners (Estuarine Utilisation Category, [EUC] I), mainly the Gobiidae, Glossogobius callidus, dominated the samples numerically and by biomass. The smaller estuarine spawning species sampled in the channel were numerically dominated by Gilchristella aestuaria in conjunction with two other EUC I species, Atherina breviceps and G. callidus. The estuarine-dependant marine spawners (EUC II), however, dominated the ichthyofaunal biomass of the channel. The abundance and biomass of the larger species targeted were dominated by estuarine-dependant marine spawning species (EUC II), principally Rhabdosargus holubi. During the closed periods of the estuary, total fish abundance and biomass displayed weak seasonal patterns. The breaching event and subsequent open period was associated with a decrease in the total abundances of fish in the littoral zone and channel of the estuary, reflecting the out-flow of estuarine biomass-rich water into the marine environment. The breaching event coincided with a shift in the community composition of the ichthyofauna, reflecting the recruitment of marine spawning species into the estuary. Numerical analysis identified two distinct spatial fish communities within the estuary, a community associated with the mouth region and one comprising the rest of the estuary. The absence of any further spatial patterns in the ichthyofaunal community structure within the Mpekweni Estuary appear to be ascribed to the virtual absence of horizontal patterns in physico-chemical and biological parameters recorded in the system. Cohort analyses were employed to determine possible recruitment events for selected estuarine and marine spawning species. The estuarine spawning species displayed continuous recruitment patterns throughout the study, which appeared to be unaffected by the breaching event. Conversely, the larger marine spawning species displayed multiple cohorts, indicating non-continuous recruitment. Subsequent retrospective analysis of cohorts for the different species identified summer recruitment peaks that coincided with the breaching event and open period. Minor recruitment of marine spawning species also occurred during overwash events. The recruitment of ichthyofauna into the estuary was quantified during three distinct hydrological events: overwash, out-flow phase immediately after breaching and tidal phase during the period when the mouth was open. Estimates of fish recruitment were highest during the outflow phase immediately after the estuary breached and declined as the estuary became tidally inundated with marine water. Although not as high as the outflow and tidal phases, recruitment was evident during overwash events. Results of the current study highlight the importance of both breaching and overwashing events in structuring the ichthyofaunal community composition in a medium-sized southern African temporarily open/closed estuary. These results are broadly in agreement with similar studies conducted both locally and in other regions of the world.

Made available in DSpace on 2017-07-10T18:13:30Z (GMT). No. of bitstreams: 1 Patricia S da Silva.pdf: 3404031 bytes, checksum: 5e4338885b036077d4619e4525d56526 (MD5) Previous issue date: 2011-08-19 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / The objective of this study was to analyze spatial and temporal patterns of ichthyoplankton in tributaries (Aguapeí, Verde, Pardo and Anhanduí) of Porto Primavera Reservoir, Upper Paraná River, Brazil, and its relation to some environmental variables. Specifically we sought to (I) assess whether the tributaries have similar abiotic characteristics, (II) verify that abiotic factors have more influence in the spawning of the species, (III) investigate if the species have preference for tributaries, and (IV) analyze whether the tributaries of the Porto Primavera Reservoir are really suitable environments for reproduction of fish species, especially long-distance migratory drastically affected by impoundments. Samples were taken monthly during three spawning seasons (October to March from 2007 to 2010), through horizontal hauls on the water surface at dusk, with a plankton net. The principal component analysis (PCA) was used to ascertain whether the abiotic variables differed among the tributaries. The influence of environmental variables (water temperature, pH, electrical conductivity, dissolved oxygen, turbidity, water level and discharge) in the abundance of eggs and larvae was determined using the Bioenv procedure. The Kruskal-Wallis (KW) was applied to verify spatial (tributaries: rivers Aguapeí, Verde, Pardo and Anhanduí; and habitats: main channel and lagoon) and temporal distribution patterns (month: October, November, December, January, February, and March, and spawning seasons: 1 =2007/2008, 2=2008/2009, and 3=2009/2010). The characteristic taxa of each tributary were identified through Indicator Species Analysis (IndVal). A total of 49,072 eggs, 63,857 larvae were captured. The variable that best correlated with the distribution and abundance of ichthyoplankton was the water discharge. The highest densities of eggs were noted for the Verde river, however larvae did not differ significantly among the tributaries. Eggs had the highest densities in the main channel and while larvae in lagoons. High catches of ichthyoplankton were observed from November to January, but with a peak in December. Abundance of eggs were higher in the 2009/2010 spawning season, however the larvae did not differ among spawning season. The species composition varies along the tributaries and each river has a group of indicator species. In main channel of the rivers were mainly found larvae of migratory species of short distance and long-distance and in the lagoons mainly sedentary or migratory species of short distances. The tributaries assessed are spawning grounds for many fish species and can be considered suitable for the reproduction of many long-distance migratory species. Establishment and enlargement of Conservation Units in tributaries of Porto Primavera reservoir, can help preserve habitats identified as essential spawning and nursery areas, and can be key to the maintenance and conservation of the fish species in the upper Paraná River basin. / O objetivo deste trabalho foi analisar padrões espaciais e temporais do ictioplâncton em tributários (Aguapeí, Verde, Pardo e Anhanduí) do reservatório de Porto Primavera, alto rio Paraná, Brasil, e sua relação com algumas variáveis ambientais. Especificamente procurou se (I) Avaliar se os tributários apresentam características abióticas similares, (II) Verificar que fatores abióticos exercem maior influência na desova das espécies, (III) Averiguar se há preferência das espécies de peixes quanto aos tributários, e (IV) Analisar se os tributários do reservatório de Porto Primavera realmente são ambientes adequados à reprodução das espécies de peixes, em especial as migradoras de longa distância drasticamente afetadas pelos represamentos. As amostragens foram realizadas durante três estações reprodutivas sucessivas (outubro a março de 2007 a 2010), ao anoitecer com rede de plâncton. A análise de componentes principais (ACP) foi empregada para averiguar se as variáveis abióticas diferiam entre os tributários. A influência das variáveis ambientais (temperatura da água, pH, condutividade elétrica, oxigênio dissolvido, turbidez, nível e vazão) na abundância de ovos e larvas foi determinada através do procedimento Bioenv. O teste de Kruskall Wallis (K-W) foi aplicado para verificar padrões de distribuição espacial (tributários: rios Aguapeí, Verde, Pardo e Anhanduí; e habitats: rio e lagoa) e temporal (meses: outubro, novembro, dezembro, janeiro, fevereiro e março; e estações reprodutivas: 1 = 2007/2008, 2 = 2008/2009 e 3 = 2009/2010). Os táxons característicos de cada tributário foram identificados por meio da Análise de Espécies Indicadoras (IndVal). Um total de 49.072 ovos, 63.857 larvas foi capturado. A variável que melhor se correlacionou com a distribuição e abundância do ictioplâncton foi a vazão. As maiores densidades de ovos foram verificadas para o rio Verde, porém as de larvas não diferiram significativamente entre os tributários. Ovos apresentaram maiores densidades nos rios e as larvas nas lagoas. Capturas elevadas do ictioplâncton foram observadas de novembro a janeiro, porém com pico em dezembro. As capturas de ovos se sobressaíram na estação reprodutiva de 2009/2010, no entanto, as de larvas não diferiram entre as estações reprodutivas. A composição das espécies ao longo dos tributários varia e cada rio apresenta um grupo de espécies indicadoras. Nos rios foram encontrados principalmente larvas de espécies migradoras de curta e longa distância e nas lagoas principalmente de espécies sedentárias ou migradoras de curta distância. Os tributários analisados atuam como área de desova de várias espécies de peixes e podem ser considerados propícios para a reprodução de várias espécies migradoras de longa distância. A criação e ampliação de Unidades de Preservação Permanente nos tributários do reservatório de Porto Primavera podem auxiliar na preservação dos habitats identificados como áreas essenciais para a desova e berçário, e pode ser a chave para a manutenção e conservação das espécies de peixes na bacia do alto rio Paraná.

Reproduction in vertebrates, including fishes, is under control of the brain-pituitary-gonad (BPG) axis. The female three-spined stickleback, Gasterosteus aculeatus, produces egg clutches at intervals of a few days and spawns them in a nest built by male. Following ovulation, eggs are stored in the ovarian cavity surrounded by the ovarian fluid (OF). If spawning or spontaneous release do not occur, the eggs can undergo overripening, a phenomenon occurring both in nature and captivity. In this PhD thesis, the changes of reproductive hormones and vitellogenesis were studied at overripening of eggs and over the natural spawning cycle. OF properties were also examined at overripening of eggs and after treatment with sex steroids. Plasma levels of steroids: testosterone (T), estradiol (E2), 17,20β-dihydroxypregn-4-en-3-one (17,20β-P) and 17,20β,21-trihydroxypregn-4-en-3-one (17,20β,21-P) were measured by radioimmunoassay, and relative mRNA levels of the pituitary gonadotropins (fsh-β/lh-β), brain gonadotropin-releasing hormones (gnrh2/gnrh3) and kisspeptin and its receptor (kiss2/gpr54) by qPCR. Overripening of eggs was accompanied with a significant reduction in most of endocrine parameters of BPG axis (T, E2, 17,20β-P; lh-β; kiss2, gpr54). Low level of hormones could be advantageous for the overripe egg-bound females, since this would reduce further ovulations giving higher chances to survive and reproduce again. Over the 3-day spawning cycle, T and E2 were highly correlated, showed cyclicity with low levels at ovulation and increasing from 24 and 6 hours post-spawning (hps), respectively. Spawning may give rise to this increase as these rises did not occur if release of the eggs does not happen (overripe females). A peak at pituitary lh-β mRNA levels appeared 48 hps, a day before the next ovulation. No significant changes were found for the other studied hormones. Vitellogenesis was studied by measurement of the vitellogenin mRNA levels in the liver by qPCR. The levels were highest at 24 and 48 hps and were positively correlated to both E2 and T over the cycle. However, changes were small suggesting a rather continuous vitellogenesis over the stickleback spawning cycle which could be an advantage for a multiple spawner with a limited spawning season. Overripening reduced vitellogenin mRNA levels but did not abolish it. OF amount was diminished in overripe females and had a lower viscocity but higher dry weight and protein levels than in non-overripe ovulated females, suggesting that changes in OF properties are related to the egg overripening. The effects of steroids were studied using Silastic capsules. T and 17,20β-P induced an increase of OF amount, but protein levels were only increased in 17,20β-P-treated females, proposing a role of this steroid in the control of OF secretion. 1-D SDS-PAGE showed that OF contained several proteins, some of them came from eggs, but no consistent differences between groups. Concluding, the knowledge of the reproductive physiological changes is important for understanding their essential roles in the production of viable eggs in this species but also in the reproductive physiology of female fishes in general. / <p>At the time of the doctoral defense, the following papers were unpublished and had a status as follows: Paper 3: Manuscript. Paper 4: Manuscript.</p>

It was previously thought that the South African chokka squid Loligo reynaudi is exclusively an inshore, shallow water spawner. Although spawning mostly within shallow bays (<60 m) the presence of squid eggs in trawls at depths up to 130 m indicates this species frequently makes use of deeper spawning areas on the mid-shelf. The extent of mid-shelf spawning (referred to as deep spawning) and the contribution to recruitment has yet to be assessed. Studies have shown mid-shelf bottom temperature to vary considerably from those inshore, suggesting chokka squid spawn in two very different oceanographic environments. Considering these apparent environmental differences, what leads to the mid-shelf environment becoming a suitable spawning habitat? Does a suitable benthic habitat, required for the attachment of egg pods, occur on the mid-shelf? These questions are not only important for determining the extent of deep spawning, but also to the understanding of factors “driving” deep spawning. The fate of deep spawned hatchlings is another unknown. It has been proposed that the main chokka squid inshore spawning grounds are positioned to exploit the net westward currents on the Eastern Agulhas Bank, i.e. paralarvae would be transported west from the hatching site to the cold ridge, an area of high primary and secondary productivity on the Central Agulhas Bank. This concept has come to be known as the Western Transport Hypothesis. Lagrangian ROMS-IBMs (regional ocean model system – individual-based model) predict the net westward transport of paralarvae from both the inshore and deep spawning grounds, to the cold ridge. These simulations were used to investigate the transport of hatchlings to the cold ridge feeding grounds before the exhaustion of yolk reserves. The fate of paralarvae on reaching the feeding grounds has not yet been investigated. This work has contributed new knowledge to our understanding of deep spawning and its role in recruitment. Specific aims of this study were to (1) determine the extent, range and importance of the deep spawning grounds relative to those inshore; (2) investigate the deep spawning ground habitat (Agulhas Bank mid-shelf) morphology and oceanographic environment; (3) determine the transport and survival of deep spawned hatchlings; and (4) investigate the origin and distribution of chokka squid paralarvae on the Agulhas Bank. The extent, depth range and importance of the deep spawning grounds, relative to those inshore was assessed using 23 years of demersal trawl survey data. Data for both the west and south coasts of South Africa were examined for egg capsules. No spawning was found on the west coast. Data showed that chokka squid preferred the Eastern Agulhas Bank for spawning. Spawning occurred not only inshore but also on the mid-shelf extending to depths of 270 m near the shelf edge. The majority of deep spawned eggs however, were found in the depth range 71-130 m. Squid egg density markedly decreased beyond 70 m, suggesting delineation between the inshore and deep spawning grounds. Total egg biomass calculations for depths shallower and deeper than 70 m indicated the coastal area to be strongly favoured, i.e. 82 vs. 18%. These results contest the commonly accepted notion that chokka squid is an inshore spawner and redefine the spawning grounds to extend across the shelf. Apart from an initial study investigating bottom temperature on the mid-shelf, very little is known about the deep spawning habitat. St Francis Bay, a commonly used spawning location, was chosen as a demonstration area for further study. The deep spawning grounds (71-130 m) were mapped and benthic habitat described from underwater video footage. A study investigating cross-shelf bottom conditions was undertaken off Thys Bay. CTD data were used to compare seasonal bottom temperature and oxygen on the St Francis Bay inshore and deep spawning grounds. Squid movement between the two spawning habitats was assessed using filament tagging. Predation and fishing pressure across the spawning grounds was reviewed. The mid-shelf benthic habitat was found to be similar to that inshore and available for spawning. Despite the generally colder bottom temperatures on the mid-shelf, this study showed that bottom temperature in deeper waters can at times be warmer than inshore. Although mid-shelf warming events lasted from a few hours to a number of days, they resulted in similar conditions to those on the inshore spawning grounds. It is likely these events act to expand or shift spawning habitat. The movement of squid between the two spawning habitats makes it possible for them to seek patches of warm bottom water with appropiate substrate. This suggests they are spawning habitat opportunists. Predation and fishing pressure appear to be higher on the inshore spawning grounds. It is feasible that this also forces spawners to seek out more favourable habitat offshore. An individual-based model was used to predict the fate of mid-shelf and inshore hatched paralarvae. Within the model, both the highly productive cold ridge and inshore spawning grounds were considered feeding or nursery areas. Paralarvae were released from six inshore and six deep spawning sites, spanning the coast between Port Alfred and Knysna. All paralarvae not reaching the feeding areas before the exhaustion of yolk-reserves (≤5 days), not retained within the feeding grounds (≥14 days), and not retained on the Agulhas Bank after exiting the feeding grounds were considered lost. This work illustrated the dependence of paralarval transport success on both spawning location and time of hatching, as established in earlier studies. The current IBM has expanded on initial work, emphasizing the importance of the cold ridge and inshore spawning grounds as nursery areas for deep and inshore spawned paralarvae, respectively. This work has highlighted the complex interactions between processes influencing recruitment variability for chokka squid. Possible relationships between periods of highest recruitment success and spawning peaks were identified for both spawning habitats. Based on the likely autumn increase in deep spawning off Tsitsikamma, and the beneficial currents during this period, it can be concluded deep spawning may at times contribute significantly to recruitment. This is particularly true for years where the cold ridge persists into winter. Data on chokka squid paralarval distribution are scarce. Paralarval distribution and abundance, in relation to Agulhas Bank oceanography, was investigated using bongo caught paralarvae and corresponding oceanographic data. Individual-based models (IBMs) were used to predict the origin or spawning site of the wild caught paralarvae, with reference to inshore versus deep spawning. Although failing to predict realistic points of origin, this study provided evidence to support a number of scenarios previously assumed to influence chokka squid recruitment. First is the possible influence of coastal upwelling on the retention, and hence spatial distribution, of paralarvae on the inshore spawning grounds. The second factor thought to impact recruitment is the loss of paralarvae from the Agulhas Bank ecosystem. This study confirmed the removal of paralarvae from the Eastern Agulhas Bank due to Agulhas Current boundary phenomena and resultant offshelf leakage. In addition, data suggested that the formation of the cold ridge could enhance retention on the Central Agulhas Bank, and so prevent offshelf leakage from the Central and Western Agulhas Bank. A synthesis of the main conclusions is presented. Implications of the findings and directions for future research are discussed.

The transmission of sex pheromone-mediated signals is essential for goldfish reproduction. However, the neural pathways underlying this reproductive signalling pathway in the goldfish brain is not well described. Lesioning experiments have shown previously that two brain areas, the preoptic area (POA) and the ventral telencephali pars ventralis (Vv) in particular, are important for reproduction. We used patch clamp electrophysiology to study the electrical activities of POA and Vv neurons. Based on the intrinsic properties of these neurons, we suggest there are five different functional classes of POA neurons and a single class of Vv neurons. In addition, by electrically stimulating the olfactory bulb (OB), we were able to show that this primary sensory structure makes monosynaptic glutamatergic connections with both POA and Vv neurons. While electrophysiology measures signalling events occurring at short time scales on the order of milliseconds to minutes, we were also interested in studying sex pheromone signalling in the goldfish brain over a long time scale. Thus, we describe changes in gene expression in male goldfish exposed to waterborne sex pheromones (17alpha,20beta dihydroxy-4-pregene-3-one and Prostaglandin-F2alpha) over 6 hours. We perform cDNA microarrays on Prostaglandin-F2alpha-treated fish to study the rapid modulation of transcription and define the signalling pathways affected. Our microarrays showed that 71 genes were differentially regulated (67 up and 4 down). Through gene ontology enrichment analysis, we found that these genes were involved in various biological processes such as RNA processing, neurotransmission, neuronal development, apoptosis, cellular metabolism and sexual reproduction. RT-PCRs were performed to validate our microarrays and to facilitate direct comparisons of the effects of the two sex pheromones, 17alpha,20beta dihydroxy-4-pregene-3-one and Prostaglandin-F2alpha. By combining electrophysiology and gene expression analyses, we were able to study sex-pheromone signalling on two different time scales. One short, occurring on the order of milliseconds to minutes, that involves electrical activities in the brain through the glutamatergic amino-3-hydroxy-5-methylisoxazole-4-propionate and N-methyl-D-aspartate receptors; and the other long occurring several hours later that involves changes in the gene expression levels of calmodulin and ependymin among other genes underlying neuroplasticity. Reproductive neuroplasticity in the goldfish may therefore require the activation of glutamatergic receptors which then activate downstream signals like calmodulin and ependymin to transform the sex pheromones-mediate signal into gene expression.

No description available.

Migration occurs among many animal species for the purpose of, among other things, finding food or to reproduce. Spawning migration is a form of migration that occurs among many fish species where they move to another site for reproduction. The movement can be obstructed by migration barriers like road culverts. Barriers to migration pose one of the greatest threats to biodiversity and ecosystem functions in freshwater. They impair the connectivity of watercourses and may prevent fish from improving reproductive success or completing their life histories altogether. There are both benefits and costs with migration, benefits such as increased survival for the adults and offspring, and costs such as increased energy consumption and increased mortality. The costs are often dependent on the morphological traits of the individual, like body shape and size. In this study, the spawning migration of two species of fish of the family Cyprinidae, ide (Leuciscus idus) and roach (Rutilus rutilus) was investigated. Few studies have been made on ide or on roach compared to other cyprinids and salmonids. This study might therefore enhance the overall knowledge of these two species. The overall aims of this project are to study and compare phenotypic correlates of spawning migration behaviour of ide and roach. The field studies were performed in Oknebäcken, Mönsterås (SE632310-152985), Sweden in March and April 2020. To describe the watercourse and define the location and characteristics of different potential migration barriers, a simplified biotope mapping method was used. The fish were caught in a hoop net and then measured, weighted, sexed, and injected with passive integrated transponder using the bevel down method. In order to register in stream movement of fish, reading stations with antennas were placed, at two locations upstream from the marking station and one downstream at the estuary. The sex ratio differed from the expected 1:1 with a majority of females for both species. This might be a result of fluctuations in survival of spawn coupled with different age-at-maturity between sexes. We found that individuals that arrived early to the stream were larger for both study species, as other studies also reported. Also, male ide was both larger and arrived before female ide. There might be an energy cost associated with early arrival to the stream and therefore, larger individuals arrive first. For roach, there was no difference in arrival time between the sexes although female roach were larger. There was no difference in the time spent in the stream between the species. For ide, females stayed for a longer period of time in the stream than males. However, the opposite was true for roach. This may be because male roach might benefit from more fertilization events when staying longer. There might therefore be a trade-off between the energy cost in staying in the stream and the increased fitness advantage in fertilization events. We found no correlation between any of the morphological traits and migration distance. However, since very few individuals were registered at the upstream reading stations, there might be an effect of migration barriers on the spawning migration. The mortality after spawning was higher for roach than for ide. For ide, a larger proportion of females than males died. For roach, individuals that arrived early was classified as alive to a greater extent than those who arrived late. Both similarities and differences between the species were discovered in this study which concludes that even closely related species might differ substantially from each other.

The innate immune system in vertebrates is considered to lack specific memory. To investigate innate immune system based immunological protection mediated by cells that are not part of the acquired immune system the Tübingen recombination activation gene1 (rag1)t26683 mutant (MT) zebrafish was chosen. Molecular analysis demonstrated MT zebrafish kidney cells expressed Non-specific Cytotoxic cell receptor protein-1 (NCCRP-1) and Natural Killer cell (NK) lysin but lacked T cell receptor (TCR) and immunoglobulin (Ig) VH1, VH2, VH3 and VH4 expression. Differential counts of peripheral blood leukocytes indicated that MT fish had decreased lymphocyte populations (34.7%) compared to rag1+/+ wild-type (WT) fish (70.5%), and increased granulocyte populations (34.7%) compared to WT (17.6%). Further, endocytic functions of phagocytes from MT fish were compared to WT fish. No significant differences in the selective and non-selective mechanisms of uptake in phagocytes were observed between MT and WT zebrafish. For the first time it was shown that zebrafish phagocytes utilize macropinocytosis and Ca2+ dependant endocytosis mechanisms for antigen uptake. These characterization studies suggest that MT zebrafish provide a unique model for investigating innate immune responses because fully functional innate defenses are present without the influence of lymphocytes and lymphocyte associated acquired immune responses. To conduct such large scale investigations the first ongoing rag1t26683 mutant zebrafish breeding colony was established. To meet special husbandry needs of immunodeficient MT zebrafish, standard rearing protocols were advanced and the information was made available to the zebrafish community at: http://www.cvm.msstate.edu/zebrafish/index.html. Multiple trials were conducted to evaluate the potential for memory of the innate immune system. Significant reduction in mortality was observed in MT vaccinated zebrafish upon secondary exposure to Edwardsiella ictaluri when compared to unvaccinated, MT fish. This documents for the first time, that MT zebrafish, lacking an acquired immune system, are able to mount a protective immune response to Edwardsiella ictaluri and generate protection upon a repeated encounter to the same pathogen. The observed protection is long lasting and mediated by the innate immune system, but a specific mechanism is not yet defined.

The Atlantic cod (Gadus morhua L.) fishery is of great economic importance to the Faroese economy. There are two separately managed cod stocks around the Faroe Islands, the Faroe Plateau and the Faroe Bank cod. Both have experienced dramatic decreases in size and informed management decisions are vital for both stock viability and exploitation. The stocks are geographically isolated by an 800 m deep channel and water temperatures are on average 1 – 2 ºC higher on the Faroe Bank than on the Faroe Plateau. There are clear phenotypic differences between the stocks; in particular, the markedly higher growth rate for the Faroe Bank cod has caught public and scientific attention. There is continuing debate regarding the relative importance of genetics and environmental contributions to the contrasting phenotypes. Analyses of reproductive parameters (field data and experimental captive spawnings) as well as analyses of microsatellite and single nucleotide polymorphism (SNP) markers were undertaken to better resolve the issue. Field data as well as data from experimental captive spawnings provided evidence of reproductive differences between Faroe Plateau and Faroe Bank cod. Peak spawning occurred earlier on the Faroe Plateau than on the Faroe Bank and this difference in timing of spawning was maintained in captivity. In particular, differences in sizes of eggs (average diameters of 1.40 and 1.30 mm for Faroe Plateau and Faroe Bank cod eggs, respectively) and indirect evidence of greater volumes spawned by the Faroe Bank females suggested stock differences with respect to egg size – egg number trade-off. It was hypothesised that the strategy adopted by cod on the Faroe Bank, with a higher number of smaller eggs, evolved in response to a more hostile environment (bare seabed and higher exposure to predators) experienced by early life stages in this area. Experimental captive spawnings with Faroe Bank cod showed a large interfamily skew in survival rates of cod eggs and fry. Egg size was identified as a useful indicator of survival rates in the egg stage, but egg survival rates could not be used to predict viability in later developmental stages, thus highlighting the importance of employing some sort of genetic monitoring of cod fry to ensure sufficient family representation in the progeny. While no tank effect was evident concerning fry survival, a significant tank effect was identified concerning body sizes of fry. Microsatellite data were analysed using large sample sizes of Faroe Plateau and Faroe Bank cod with the Faroe Plateau divided into two locations, Faroe Plateau North-East and Faroe Plateau West (cod from each of the two were known to belong to separate spawning grounds). Two Norwegian coastal cod samples were included as outlier populations. While no genetic differentiation was detected between the two Faroe Plateau locations, these analyses revealed a detectable, albeit relatively modest, degree of genetic differentiation between cod from the Faroe Plateau and the Faroe Bank (FST = 0.0014 and 0.0018; DJost_EST = 0.0027 and 0.0048; P < 0.0001 and P < 0.001 for the Faroe Plateau North-East – Faroe Bank and the Faroe Plateau West – Faroe Bank comparisons). These values were several times smaller than those between Faroese and Norwegian coastal cod (pairwise FST and DJost_EST values in the range of 0.0061 – 0.0137 and 0.0158 – 0.0386, respectively). Despite recent reductions in census population sizes for Faroe Plateau and, particularly, Faroe Bank cod, genetic diversity estimates were comparable to the ones observed for Norwegian coastal cod and there was no evidence of significant genetic bottlenecks. Lastly, data for one of the markers (Gmo132) indicated genotype-dependent vertical distribution of cod (as investigated for Faroe Plateau North-East cod). Contrary to some previously published studies, analysis of SNPs of two candidate genes for adaptive divergence, the hemoglobin gene Hb-ß1 and the transferrin gene Tf1, failed to detect differentiation between samples of Faroe Plateau and Faroe Bank cod analysed in this thesis. Of 3533 novel SNPs simultaneously discovered and genotyped by restriction-site associated DNA (RAD) sequencing, 58 showed evidence of genetic differentiation between Faroe Plateau North-East and Faroe Bank cod (P < 0.05). No single locus was fixed for different alleles between Faroe Plateau and Faroe Bank cod. A set of eight informative SNPs (FST values between Faroe Plateau and Faroe Bank samples > 0.25; P < 0.0005) were selected for validation in larger samples, that included cod from both Faroe Plateau areas and the Faroe Bank as well as Norwegian coastal and White Sea cod. Six out of the eight loci amplified successfully with a PCR-based method and there was 100 % concordance between genotypes of individuals screened by both techniques. Due to ascertainment bias, the SNPs should only be applied with caution in a broader geographical context. Nonetheless, these SNPs did confirm the genetic substructure suggested for Faroese cod by microsatellite analyses. While no genetic differentiation was evident between the two Faroe Plateau locations, significant genetic differentiation was evident between Faroe Plateau and Faroe Bank cod at five of the SNPs (FST values in the range of 0.0383 – 0.1914). This panel of five SNPs could confidently be used to trace groups of Faroe Plateau and Faroe Bank cod to their population of origin. In conclusion, multiple lines of evidence demonstrate that Faroe Plateau and Faroe Bank cod are truly two genetically distinct populations. While the findings contribute to a broader understanding of the biology and the genetics of Faroe Plateau and Faroe Bank cod, the novel SNPs developed may provide a valuable resource for potential future demands of i.e. genetic stock identification methods.

Les sites d'agrégation de ponte (AP) sont des zones où des poissons d'une même espèce se rassemblent pour frayer. En dépit de leur importance dans la reproduction de nombreuses espèces de poissons des récifs coralliens, bien peu de sites d'AP sont gérés. Le but de cette étude est d'améliorer la compréhension générale sur l'écologie des sites d'AP en vue de faciliter la gestion. L'étude, réalisée aux Seychelles, se concentre sur les individus regroupant sur les sites d'AP pour frayer et aussi sur ceux résidant sur ces sites. La télémétrie acoustique et le recensement visuel sous-marin ont, ici, été employé comme principaux outils d'observation des espèces formant des agrégations de reproduction (cordonnier (Siganus sutor), mérou camouflage (Epinephelus polyphekadion) et mérou marbré (E. fuscoguttatus)) et des espèces résidant sur les sites d'AP. Les détections acoustiques ont montré que les individus de S. sutor présentent une grande fidélité à leur site de ponte et une périodicité liée à la période de pleine lune. Par ailleurs, les agrégations de ponte d'E. fuscoguttatus et E. polyphekadion se chevauchent spatialement et temporellement avec une forte périodicité liée à la nouvelle lune. La formation d'AP de E. fuscoguttatus et E. polyphekadion provoque des changements complexes dans l'assemblage de poissons résidents sur le site. L'effet de la phase lunaire sur les assemblages de poissons résidant sur les sites d'AP de S. Sutor apparait être dépendant de l'échelle considérée. Les informations sur la dynamique spatiale et temporelle des espèces étudiée sont utilisées pour proposer des mesures de gestion susceptibles d'améliorer la protection des sites d'AP. / Fish spawning aggregation (FSA) sites are areas where repeated concentration of conspecific fish gathers for the purpose of spawning. Despite of their importance in the reproduction of many coral reef fishes, few FSA sites are actively managed. The aim of this study, conducted in the Seychelles, was to improve general understanding on the ecology of FSA sites to facilitate their management. It focuses on both the individuals that aggregate at FSA sites to spawn and those that are resident at FSA sites. Acoustic telemetry and underwater visual census were used to study three species that form spawning aggregations (spinefoot shoemaker (Siganus sutor), Camouflage grouper (Epinephelus polyphekadion) and Brown-marbled grouper (E. fuscoguttatus)) and the resident fish assemblages at FSA sites. Acoustic detections found individual S. sutor to have high fidelity to individual FSA sites and to show significant periodicity with the full moon period in the timing of their arrival and departure from FSA sites. Conversely, spawning aggregations of E. fuscoguttatus and E. polyphekadion overlapped spatially and temporally, with strong periodicity for spawning aggregation to form with the new moon period. The formation of E. fuscoguttatus and E. polyphekadion FSAs caused complex changes in the fish assemblage that is resident at the FSA site. The effect of lunar phase on the resident fish assemblages at S. sutor FSA sites appeared to be scale-dependent, having greater impact at the larger than the smaller FSA site. Information on the spatial and temporal dynamics of aggregating and resident fish species is used to propose management actions to improve the protection of FSA sites.