Thesis (Ph.D.) - James Cook University, 2005. / Typescript (photocopy). Bibliography: leaves [293]-336.

Made available in DSpace on 2014-06-11T19:35:44Z (GMT). No. of bitstreams: 0 Previous issue date: 2004-01-06Bitstream added on 2014-06-13T19:05:57Z : No. of bitstreams: 1 garla_rc_dr_rcla.pdf: 1566045 bytes, checksum: 33a6e91849d61d578c9d020171e589af (MD5) / Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) / O presente trabalho visa gerar informações básicas sobre a ecologia e a situação populacional do tubarão-cabeça-de-cesto Carcharhinus perezi, lambarú Ginglymostoma cirratum e tubarão-limão Negaprion brevirostris no Arquipélago de Fernando de Noronha, com ênfase na primeira, por ser numericamente dominante. Utilizou-se a combinação de técnicas de marcação e recaptura e de telemetria ultra-sônica para fornecer informações sobre: estrutura populacional, distribuição espacial dos tubarões e de suas áreas de berçário, época de parto, padrões de movimentação e de utilização do hábitat. Amostras de sangue foram analisadas para caracterização sorológica das espécies. Foi implantado um programa de conscientização e educação sobre a necessidade de conservação dos tubarões, e realizou-se um curso de capacitação em Educação Ambiental para os professores do ensino médio e fundamental. A plataforma insular do arquipélago é utilizada como área de parto e de crescimento de jovens pelas três espécies de tubarões. Carcharhinus perezi apresenta maior segregação espacial por tamanho. Não ocorre segregação espacial em Ginglymostoma cirratum e Negaprion brevirostris pois foram observados indivíduos neonatos, jovens e adultos freqüentando a região próxima à linha costeira do arquipélago. Os tubarões utilizam com menor freqüência o trecho da Área de Proteção Ambiental (APA) do arquipélago, o que possivelmente está relacionado à intensificação da utilização humana e a indícios de empobrecimento biológico da região nos últimos anos. O monitoramento por telemetria mostra que: os tubarões jovens são residentes em trechos específicos do arquipélago; eles podem ser ativos a qualquer horário do dia, mas os maiores espaços de atividade e deslocamentos ocorrem à noite; aparentemente não existem variações sazonais... / The aim of the present study is to provide basic data on the ecology and population status of the reef-shark Carcharhinus perezi, nurse-shark Ginglymostoma cirratum and lemon-shark Negaprion brevirostris at Fernando de Noronha archipelago, with special reference to Carcharhinus perezi, due to its numerical dominance. A combination of mark and recapture and ultrasonic telemetry methods were used to gather data on: the population structure, spatial distribution of the sharks, location of the nursery grounds, parturition time, patterns of movement and habitat use. Blood samples were analyzed for a serological characterization of the species. An educational program was established to increase the community awareness about shark conservation, and a capacitating course on Environmental Education was offered to teachers of the local school. The archipelago s insular shelf is used as a parturition and growing ground for young sharks of the three species. Carcharhinus perezi shows size segregation. Size segregation was not observed in Ginglymostoma cirratum and Negaprion brevirostris, and neonate, young and adult sharks of these species were observed to frequent shallow waters of the archipelago. Sharks rarely frequent the archipelago s Environmental Protection Area (EPA), which is probably related to an intensification of human use and evidences of biological impoverishment of this site in recent years. The telemetry monitoring shows that: the young sharks are resident and present site fidelity to specific portions of the archipelago; they may be active at any time of the day, but the larger activity spaces and excursions occur at night; apparently there is no seasonal variation in activity spaces and habitat use; and larger sharks have more extensive activity spaces. The main problems for the management and conservation of the sharks are:... (Complete abstract click electronic access below)

La conservation et la gestion sur le long terme de la biodiversité nécessitent une connaissance de la répartition des taxons, mais également une estimation précise de leur diversité spécifique ainsi que des processus de spéciation ayant permis leur formation. Cependant, la mesure de la richesse phylétique peut être biaisée par l'utilisation de caractères taxinomiques ne permettant pas de délimiter les espèces de manière appropriée. Ce travail de thèse propose d'explorer la diversité phylétique à plusieurs niveaux taxinomiques (générique, spécifique et intra-spécifique) des Aglaopheniidae, une famille d'hydrozoaires, notamment présente dans le Sud-Ouest de l'océan Indien. Dans un premier temps, en utilisant des phylogénies basées sur plusieurs marqueurs (mitochondriaux et nucléaires), ce travail démontre que la diversité phylétique de cette famille est, au minimum, sous-estimée de moitié : tous les genres de la famille sont polyphyléthiques ou présentent un statut monophylétique restant à confirmer. Dans un deuxième temps, l'utilisation de méthodes de délimitation d'espèces basées sur des données moléculaires met en évidence la diversité cryptique très élevée des morpho-espèces étudiées, révélant l'intérêt potentiel des protocoles de taxinomie intégrative chez les organismes morphologiquement simples. Enfin, l'étude de génétique des populations d'une espèce incubatrice d'Aglaopheniidae révèle l'importance de la structuration des populations et de l'isolement par la distance chez cette espèce à plusieurs échelles géographiques (de quelques kilomètres à plusieurs milliers), impliquant une potentielle diversité cryptique extrêmement importante chez cette famille. L'ensemble des connaissances acquises lors de ce travail de thèse fournit un nouveau regard sur la diversité de la famille des Aglaopheniidae, soulignant le potentiel impact du cycle de reproduction sur la diversité phylétique et les processus de spéciation des hydrozoaires incubateurs. Cette thèse met en évidence l'importance de l'utilisation de plusieurs procédures complémentaires de délimitation d'espèces pour étudier la diversité des organismes morphologiquement simples. / Designing biodiversity conservation plans requires knowledge on the biogeographic distribution of taxa but also accurate estimates of species richness and diversification processes. However, measuring the phyletic richness can be biased by the use of inappropriate taxonomical characters, leading to erroneous species delimitation and diversity estimates. This work explores the phyletic richness at several taxonomic levels (generic, specific and intraspecific) of the hydrozoan family Aglaopheniidae (Agassisz, 1862), with a particular focus on the South-Western Indian Ocean. Firstly, using several newly constructed phylogenies based on mitochondrial and nuclear markers, this study reveals that the phyletic diversity of this family is at underestimated by at least 50%: all studied genera are polyphyletic or with doubtful monophyletic status. Then, using several species delimitation methods based on molecular markers, it sheds light on the richness of cryptic diversity of this family, enlightening the potential of using an integrative taxonomic approach on these morphologically simple organisms. Finally, the population genetics of an Aglaopheniidae brooding species shows a high populations structuring with pervasive pattern of isolation by distance at several geographic scales (several to thousands of kilometres), implying a potentially high cryptic diversity existing in this family. The results of this work provide new insights on Aglaopheniidae diversity, underlining the potential influence of reproductive mode on the phyletic diversity and diversification processes of brooding hydrozoan brooders. This thesis further highlights the relevance of using several complementary species delimitation procedures to study the diversity of morphologically simple organisms.

Anecdotal evidence suggested that immature lemon sharks (Negaprion brevirostris) occur at the Chandeleur Islands in southeastern Louisiana. From May 2009 to August 2011, the Nekton Research Laboratory at the University of New Orleans regularly sampled habitats at the Chandeleur Islands to confirm the presence of immature individuals of this species. During these efforts, 147 immature lemon sharks (neonates, young-of-the-year, and juveniles) were collected. Each shark was PIT tagged and a tissue sample was taken for genetic analyses. Sizes ranged from 56 – 177 cm total length. Sharks showed a preference for sandy substrate and smaller individuals showed significant preference for shallow waters. Collection data for N. brevirostris were obtained from various locations around the Gulf of Mexico for comparison. Based on a review of current literature, collection data, and microsatellite analysis it was possible to classify the Chandeleur Islands as an elasmobranch nursery ground under the definition presented by Huepel et al. (2007). Current literature and high densities of N. brevirostris suggests that the Chandeleur Islands are the only area in the northern Gulf of Mexico where neonatal and YOY lemon sharks have been recorded. Results from a combination of SPOT 5 satellite tags, PIT tags, and FLOY tags show that immature N. brevirostris at the Chandeleur Islands remain in the vicinity of the islands for several months. The abundance of juvenile sharks across years provides evidence of continuous use of these islands as a pupping area. Genetic analysis supports this information with 7 of 15 mothers returning across years. The combination of this information indicates that the Chandeleur Islands are the northern- and western-most documented nursery ground for this species. Special care should be given to this habitat as CPUE for N. brevirostris decreased significantly during this research following the 2010 Deepwater Horizon disaster and subsequent oil prevention measures. Genetic research indicates a high level of inbreeding and genetic separation between the Chandeleur Islands population and other known populations in Florida, Belize, and the Bahamas.

During the summer of 2008 and 2009, we studied the ecology of the Kittlitz’s Murrelet (Brachyramphus brevirostris), a small diving seabird and candidate for the U.S. Endangered Species List, in Prince William Sound (PWS), Alaska. At-sea survey data suggests that the population significantly increased from 2001 to 2009, however there is limited evidence of reproductive success. Habitat use models showed individuals were observed in shallower waters, closer to glaciers, the shoreline, and further from moraines than the available habitat during the daytime. Finer extent sampling from 2008 suggests temperature-depth profiles also influence Kittlitz’s Murrelet daytime habitat use. The associations between Kittlitz’s Murrelets and water column characteristics are likely an effect of prey availability. Stable isotope work in 2009 suggests birds were generalist foragers prior to the breeding season, becoming more specialized following the breeding season. This specialization may have been a response to strict foraging constraints during the flightless fall molt. Time budgets of radio-tagged individuals suggest birds may have been responding to ephemeral prey concentrations, and working near their maximum energetic limits. Remote monitoring of radio-tagged individuals showed birds left the glacial fjord system during the nighttime, possibly spending these hours near gillnet fishing areas, suggesting a new possible area of concern in evaluating potential threats to Kittlitz’s Murrelet populations.

The Kittlitz's murrelet (Brachyramphus brevirostris) is a rare member of the seabird family Alcidae that breeds in coastal areas of Alaska and Beringian Russia. The species belongs to the genus Brachyramphus, an unusual seabird taxon in which all three extant species nest non-colonially, situating their nests up to 75 km inland from coastal marine waters. This nesting strategy is different from that of most seabird species, which tend to nest colonially on remote islands or sea cliffs, where terrestrial predators are generally absent or cannot easily access nests. Within the genus Brachyramphus, Kittlitz's murrelet is notable because a majority of the global population appears to nest on the surface of the ground in rocky alpine habitat near inland or tidewater glaciers, foraging in adjacent marine waters influenced by glacial outflows. The unusual nesting habits of Kittlitz's murrelet have made the study of its nesting ecology difficult, and gaps therefore exist in our understanding of the species' breeding biology. Kittlitz's murrelet populations have declined substantially in core areas of its range, causing the U. S. Fish and Wildlife Service to designate the species as a candidate for protection under the Endangered Species Act. A better understanding of Kittlitz's murrelet nesting ecology is crucial for determining potential causes of these declines and for future management of the species. To this end, I studied Kittlitz's murrelet breeding ecology and nest site selection during 2008-2011 on Kodiak Island, Alaska, in an unglaciated area that was recently found to have large numbers of accessible nests. I and my colleagues found 53 active Kittlitz's murrelet nests in inland scree-dominated habitats and placed remote, motion-sensing cameras at 33 nests. Adults exchanged incubation duties at the nest every 24 or 48 h, almost exclusively during early morning twilight. Following hatching of eggs, parents provisioned their single nestling with an average of 3.9 to 4.8 fish per day, depending on the year. Parental visits to the nest during chick-rearing occurred primarily after sunrise in the early to mid-morning hours, and during evening twilight. Fish were delivered singly to the chick, and Pacific sand lance (Ammodytes hexapterus), a high-lipid forage fish, accounted for about 92% of all identifiable chick meal deliveries. Chick growth rates were high relative to confamilial species, consistent with the high quality of chick diets; the logistic growth rate constant (K) was 0.291, greater than that for any other semi-precocial alcid. Chicks fledged an average of 24.8 d after hatching and asymptotic chick body mass averaged about 135.5 g, approximately 58% of adult body mass. Age at fledging, asymptotic chick body mass (% adult mass), and the number of meal deliveries required to fledge a chick were all lower than or as low as any other species of semi-precocial alcid. The average estimated nest survival rate during 2008-2011 was 0.093 (95% CI = 0.01–0.30), which is extremely low compared to other species in the family Alcidae, and is almost certainly insufficient to sustain a stable population. The primary causes of nest failure were depredation (47% of total nest fates), mostly by red foxes (Vulpes vulpes), and unexplained nestling mortality on the nest (21% of nest fates). Saxitoxin and/or pathogenic endoparasite burdens were observed in five of six necropsied chick carcasses, suggesting possible causes for chick mortality not directly attributable to predation. Habitat characteristics of Kittlitz's murrelet nest sites differed significantly from unused sites at several scales. At a small scale (within 5 m of the nest), nest sites had a lower percent coverage of vegetation and higher percent coverage of intermediate-sized rocks (5–30 cm diameter), compared to randomly selected unused sites. Nest sites were also located on steeper, more north-facing slopes compared to randomly selected sites. Nest sites also had a lower percent coverage of vegetation than randomly-selected sites at larger scales (within 25 m and 50 m of the nest site). Nest sites were located significantly farther from the edge of densely-vegetated habitats than random sites. There was no evidence that nest sites were different from randomly-selected sites in terms of elevation, proximity to ridgelines, or proximity to the open ocean, although a low degree of variation within the study area for these habitat characteristics may have precluded detection of potential differences. Nest survival rates did not co-vary with slope, percent vegetation coverage, distance from vegetated edges, or percent cover of intermediate-sized rocks; however, this result may be an artifact of a limited sample size. The results of this thesis will provide managers with a better understanding of the factors that may limit Kittlitz's murrelet nesting success, such as nest predation and forage fish availability, as well as factors that may influence the quality and distribution of Kittlitz’s murrelet nesting habitat in the future, given on-going and progressive climate change. / Graduation date: 2013