Habitat fragmentation can influence the genetics of a population through the direct loss of genetic diversity, and by the genetic processes that occur as a result of small remnant populations or the geographic isolation of populations. I examined the population genetics of two woodland amphibian species in localities with different land-use histories. The wood frog (Rana sylvatica) and the red-backed salamander (Plethodon cinereus) use the same general habitat but differ with respect to a few key life-history characteristics relating to dispersal. I then compared between species the relative influence each land-use scenario had on the population genetic structure. I found that habitat fragmentation affected the population genetics of the two amphibians and did so differently for each species. The differential population genetic response of these two amphibians to habitat fragmentation reinforces the important role of life-history characteristics in how the genetic structure of a population is shaped over time.

No description available.

This study devised a method to detect Ribeiroia ondatrae (class Trematoda) in water-bodies using environmental DNA (eDNA) collected from filtered water samples from selected ponds in the USA and Canada. Species-specific PCR primers were designed to target the Internal Transcribed Spacer-2 (ITS-2) region of the parasite’s genome. The qualitative PCR method was 70% (n=10) accurate in detecting R. ondatrae in ponds previously found to contain the parasite, while the qPCR method was 88.9% (n=9). To examine how the retinoic acid (RA) pathway gene expression may be perturbed during R. ondatrae infections, leading to limb development abnormalities in the wood frog (Lithobates sylvaticus). Multiple sequence alignments were used to design degenerate PCR primers to eight RA biosynthesis genes, but only two gene fragments were identified using this approach. Without effective primer sets it was not possible to measure changes in gene expression in infected frogs.

This study devised a method to detect Ribeiroia ondatrae (class Trematoda) in water-bodies using environmental DNA (eDNA) collected from filtered water samples from selected ponds in the USA and Canada. Species-specific PCR primers were designed to target the Internal Transcribed Spacer-2 (ITS-2) region of the parasite’s genome. The qualitative PCR method was 70% (n=10) accurate in detecting R. ondatrae in ponds previously found to contain the parasite, while the qPCR method was 88.9% (n=9). To examine how the retinoic acid (RA) pathway gene expression may be perturbed during R. ondatrae infections, leading to limb development abnormalities in the wood frog (Lithobates sylvaticus). Multiple sequence alignments were used to design degenerate PCR primers to eight RA biosynthesis genes, but only two gene fragments were identified using this approach. Without effective primer sets it was not possible to measure changes in gene expression in infected frogs.

The waterborne pathogen Batrachochytrium dendrobatidis (Bd), amphibian chytrid, is implicated as being the causative agent for global amphibian declines. The fungus attacks the keratinized skin of adult and postmetamorphic animals and the keratinized mouthparts of tadpoles. Postmetamorphic animals seem to be more susceptible to Bd than tadpoles and adult frogs. Hypotheses exist that the origin of the fungus is in Africa. During the study different aspects of Bd infections in South African frogs were examined including the distribution of Bd, cultivation of Bd, preservation of cultures, the morphology of Bd as an infection as well as in culture and finally differences in host defense. Positive and negative localities for Bd were identified through surveys conducted in South Africa. These data will be contributed to the Bd Mapping Project and the African Bd Database in order to determine whether chytrid has any environmental preferences. Cultures obtained from the positive localities were maintained and cryopreserved for use in numerous experiments. In a future study, DNA extractions from the cultures will be analyzed using multilocus sequence typing in order to determine the sequence type of South African strains in comparison with global strains. This will provide important epidemiological information concerning the origin and control of Bd. The morphology of Bd was also examined using scanning electron microscopy and laser scanning confocal microscopy. Damage due to Bd infections was more severe on the larval mouthparts of Amietia vertebralis than that of Hadromophryne natalensis. The adverse effect of Bd is therefore not limited to postmetamorphic animals. Confocal microscopy uses fluorescent stains and lasers to examine specific structures within organisms. An especially effective stain used during confocal microscopy on Bd is Calcofluor White M2R. Due to its specificity this stain can be used as an effective screening tool for Bd in tissue. The role of antimicrobial skin peptides as a defense against Bd was also examined. A. vertebralis experiences die-offs due to chytrid, while H. natalensis does not experience the same effect in the presence of Bd. H. natalensis possess more antimicrobial skin peptides against Bd with a higher effectiveness than peptides extracted from A. vertebralis. This may explain the observed susceptibility of A. vertebralis to Bd. The relevance of this study is in order to identify areas in South Africa in which the probability of finding Bd is high. This will help in the surveillance of Bd and in the identification of susceptible species to be monitored and protected against the fungus. The effect of Bd on frog species can also be determined by means of exposure experiment using cultures isolated during this study. Through the identification of peptides effective against Bd, predictions can be made with regard to the susceptibility of different frogs to Bd, improving our ability to protect the amphibian biodiversity in South Africa. With the use of confocal microscopy in the examination of Bd, we became the first group to use the method. By the identification of a stain with a high potential as a screening tool, we also contributed to the more efficient identification of Bd in tissue. Keywords: Batrachochytrium dendrobatidis, Bd, amphibian chytrid, distribution, cultivation, antimicrobial skin peptides, laser scanning confocal microscopy, Amietia vertebralis, Hadromophryne natalensis, South Africa / Thesis (M. Environmental Science)--North-West University, Potchefstroom Campus, 2009.

The waterborne pathogen Batrachochytrium dendrobatidis (Bd), amphibian chytrid, is implicated as being the causative agent for global amphibian declines. The fungus attacks the keratinized skin of adult and postmetamorphic animals and the keratinized mouthparts of tadpoles. Postmetamorphic animals seem to be more susceptible to Bd than tadpoles and adult frogs. Hypotheses exist that the origin of the fungus is in Africa. During the study different aspects of Bd infections in South African frogs were examined including the distribution of Bd, cultivation of Bd, preservation of cultures, the morphology of Bd as an infection as well as in culture and finally differences in host defense. Positive and negative localities for Bd were identified through surveys conducted in South Africa. These data will be contributed to the Bd Mapping Project and the African Bd Database in order to determine whether chytrid has any environmental preferences. Cultures obtained from the positive localities were maintained and cryopreserved for use in numerous experiments. In a future study, DNA extractions from the cultures will be analyzed using multilocus sequence typing in order to determine the sequence type of South African strains in comparison with global strains. This will provide important epidemiological information concerning the origin and control of Bd. The morphology of Bd was also examined using scanning electron microscopy and laser scanning confocal microscopy. Damage due to Bd infections was more severe on the larval mouthparts of Amietia vertebralis than that of Hadromophryne natalensis. The adverse effect of Bd is therefore not limited to postmetamorphic animals. Confocal microscopy uses fluorescent stains and lasers to examine specific structures within organisms. An especially effective stain used during confocal microscopy on Bd is Calcofluor White M2R. Due to its specificity this stain can be used as an effective screening tool for Bd in tissue. The role of antimicrobial skin peptides as a defense against Bd was also examined. A. vertebralis experiences die-offs due to chytrid, while H. natalensis does not experience the same effect in the presence of Bd. H. natalensis possess more antimicrobial skin peptides against Bd with a higher effectiveness than peptides extracted from A. vertebralis. This may explain the observed susceptibility of A. vertebralis to Bd. The relevance of this study is in order to identify areas in South Africa in which the probability of finding Bd is high. This will help in the surveillance of Bd and in the identification of susceptible species to be monitored and protected against the fungus. The effect of Bd on frog species can also be determined by means of exposure experiment using cultures isolated during this study. Through the identification of peptides effective against Bd, predictions can be made with regard to the susceptibility of different frogs to Bd, improving our ability to protect the amphibian biodiversity in South Africa. With the use of confocal microscopy in the examination of Bd, we became the first group to use the method. By the identification of a stain with a high potential as a screening tool, we also contributed to the more efficient identification of Bd in tissue. Keywords: Batrachochytrium dendrobatidis, Bd, amphibian chytrid, distribution, cultivation, antimicrobial skin peptides, laser scanning confocal microscopy, Amietia vertebralis, Hadromophryne natalensis, South Africa / Thesis (M. Environmental Science)--North-West University, Potchefstroom Campus, 2009.

[Truncated abstract] Amidst concern over the global phenomenon of declining amphibians, there is an increasing appreciation of the importance of understanding population dynamics at both local and regional scales. Data on the viability and persistence of species in landscapes altered by humans are scarce but an understanding of these dynamics is essential for enabling long-term species conservation in a modified world. Habitat loss, fragmentation and ensuing salinisation are of particular concern for species in Australia’s temperate agricultural regions where the rapid conversion of continuously vegetated landscapes to small fragments has occurred in less than 200 years. This thesis investigated the local and metapopulation structure of Heleioporus albopunctatus to determine the current population structure and likely future of this species in a highly degraded landscape: the wheat and sheep growing areas of southwestern Australia ... The life-history attributes of H. albopunctatus, including high fecundity, high adult longevity and low to moderate dispersal contribute to a robust regional metapopulation, responsive to changes, but with a strong chance of persistence over the long-term. H. albopunctatus appears to have adjusted to a radically modified landscape but its long-term persistence may be dependent on the existence of a small number of source populations that recruit in most years.

Thesis (M.S.)--Oregon State University, 2010. / Printout. Includes bibliographical references (leaves 68-82). Also available on the World Wide Web.

Anfíbios anuros representam um grupo de vertebrados cujo plano corpóreo apresenta uma série de modificações associadas ao desempenho locomotor através de saltos, sendo estas especializações muito antigas e conservadas filogeneticamente. Embora estudos comparativos venham demonstrando associações entre desempenho de salto e diversidade de habitat e história de vida para esse grupo filogenético, as relações entre o desempenho locomotor e o comportamento antipredatório dentro do contexto da diversificação do uso do micro-habitat permanecem inexploradas. Primeiramente, nós testamos modelos adaptativos de evolução morfológica associados com a diversidade do uso do micro-habitat (aquático, arborícola, fossorial, reofílico e terrestre) em espécies de anuros e foi examinada a relação da distância máxima do salto como uma função dos componentes das variáveis morfológicas e do uso do micro-habitat. Nós também investigamos, tanto em nível intra quanto interespecífico a influência da complexidade do microambiente (arena vazia, arena com folhiços ou arena com folhiço e arbustos) e do tipo de estímulo (aproximação versus toque) na manifestação do comportamento antipredatório em anuros. Adicionalmente, nós investigamos o efeito do uso de diferentes tipos de refúgio pelos anuros quando sujeitos aos testes de simulação predatória no laboratório. Nossos resultados demostram a existência de múltiplos ótimos adaptativos para os comprimentos dos membros associados aos diferentes usos do micro-habitat, com uma tendência de aumento dos membros posteriores em espécies reofílicas, arborícolas e aquáticas quando comparadas com espécies terrestres e fossoriais, as quais evoluíram em direção ao ótimo adaptativo com membros posteriores mais curtos. Além disso, espécies reofílicas, arborícolas e aquáticas apresentaram maior desempenho para o salto e membros posteriores mais longos quando comparadas com espécies terrestres e fossoriais. Em seguida foi abordada a influencia da complexidade do ambiente no comportamento antipredatório e nossas análises intraspecíficas mostraram que o número de respostas ativas (salto) e passivas é fortemente dependente do tipo de estímulo e varia de acordo com a complexidade estrutural do ambiente. Simultaneamente, nossas análises comparativas interespecíficas mostraram que anuros modulam a distância saltada em resposta ao toque do predador de acordo com a complexidade ambiental, e nós ressaltamos uma variação interespecífica associada ao uso de micro-habitat. Por fim, foi investigado o uso de refúgios pelos anuros expostos a testes de simulação predatória. Nossos resultados mostram que os anuros usam a vegetação arbustiva, o folhiço e a água como areas de refúgio quando sujeitadas a simulação predatória. Além disso, ocorreu variação interespecífica na escolha de refúgios potencialmente associados à diversificação do uso de microhábitat / Anuran amphibians represent a group of vertebrates whose body plan presents a series of changes associated with jumping locomotor performance; these specializations are very old and phylogenetically conserved. Although comparative studies have shown associations among jumping performance, habitat diversity and life history for this phylogenetic group, the relationship between locomotor performance and antipredator behavior remains unexplored within the context of diversification of microhabitat use and habitat. First, we tested adaptive models of morphological evolution associated with the diversity of microhabitat use (aquatic, arboreal, fossorial, torrent and terrestrial) in species of anurans and examined the relation of the maximum distance jumped as a function of components of morphological variables and microhabitat use. We also investigated, both at intra and interspecific levels, the influence of the complexity of microenvironment (empty arena, with leaf litter or bushes) and stimulus type (approach versus touch) on the manifestation of antipredator behavior in anurans. In addition, we investigated the effect of the use of different types of refuges by anurans when subjected to simulated predator tests in the laboratory. Our results demonstrate the existence of multiple optima of limb lengths associated to different microhabitats, with a trend of increasing hindlimbs in torrent, arboreal, aquatic species whereas fossorial and terrestrial species evolve toward optima with shorter hindlimbs. Moreover, arboreal, aquatic and torrent anurans have higher jumping performance and longer hindlimbs, when compared to terrestrial and fossorial species. Then, was addressed the influence of the complexity of environment on antipredator behavior and our intraspecific analyzes showed that the number of active responses (jump) and passive responses is strongly dependent on stimulus type and varies according to the structural complexity of the environment. At the same time, our interspecific comparative analyzes showed that anurans modulate the distance jumped in response to the predator\'s touch according to environmental complexity, and we highlight an interspecific variation associated with the use of microhabitat. Lastly, was investigated the use of refuges by anurans exposed to simulated predation events. Our results show that anurans use bushes, leaf litter and water as refuge areas when subjected to simulated predator. Moreover, there is interspecific variation in the choice of refuges potentially associated to diversification of microhabitat use

En augmentant la distribution des ressources dans l'espace, la fragmentation du paysage contraint le mouvement des organismes. Deux types de stratégies adaptatives antagonistes ont été mises en évidence en réponse à cette pression : une diminution ou une augmentation de la propension et de la capacité des organismes à se déplacer. La majorité de la littérature traite de la diminution des mouvements en réponse à la fragmentation du paysage. En étudiant un organisme contraint de traverser la matrice pour achever son cycle de vie (i.e. Bufo bufo), je me suis intéressée à la stratégie d'augmentation et d'optimisation des mouvements en réponse à la fragmentation. Peu d'études permettent de conclure sur l'existence de plasticité phénotypique, d'effets maternels ou d'évolution des traits liés au mouvement en réponse à la fragmentation. J'ai ainsi inclus dans ma démarche expérimentale des élevages en conditions standardisées afin d'étudier l'évolution des caractéristiques du mouvement en réponse à la fragmentation. Plus précisément, j'ai étudié l'évolution des capacités de navigation en m'intéressant à la vitesse dévolution, à la base magnétique et à l'influence de l'orientation vectorielle sur la dispersion. Je me suis également intéressée à l'évolution du comportement exploratoire en réponse à la fragmentation / Landscape fragmentation increases resource distribution and constrains animal movements. Two kinds of adaptive strategy have been revealed in response to this selective pressure: an increase or a decrease of animal capacity and propensity to move. I studied the resistance strategy (i.e. increase of movements) which is poorly documented in the literature. To do so I focused on an organism facing the need to cross the matrix to achieve its life cycle (Bufo bufo). Only a few studies enable to disentangle phenotypic plasticity, maternal effect and evolution of movement characteristics. I used common garden rearing and cross-breeding experiments in order to focus on the evolutionary dimension of movement characteristics changes induced by landscape fragmentation. More precisely, I studied the evolution of navigation capacities by focusing on vector orientation, its evolutionary rate, its genetic basis, its magnetic basis and its influence on dispersal. I also studied the evolution of the exploratory behaviour in response to landscape fragmentation and searched for convergent evolution of this behaviour