No description available.

In most eukaryotes, aerobic respiration requires interactions between autosomally- encoded genes (Ninteract genes) and mitochondrial DNA, RNA, and protein. In species where females are philopatric, contrasting distributions of genetic variation in mito- chondrial and nuclear genomes creates variation in mitonuclear interactions that may be subject to natural selection. To test this expectation, we turned to a group with extreme female philopatry: the macaque monkeys. We examined four genomic datasets from (i) wild caught and (ii) captive populations of rhesus macaque, which is the most widely distributed non-human primate, and (iii) the stump-tailed macaque and (iv) a subspecies of longtail macaque, both of whose mitochondrial DNA is introgressed from a highly di- verged ancestor. We identified atypically long runs of homozygosity, low polymorphism, high differentiation and/or rapid protein evolution associated with Ninteract genes com- pared to non-Ninteract genes. These metrics suggest a subset of Ninteract genes were independently subject to natural selection in multiple species. Selection on mitonuclear interactions is thus a factor in macaque genome evolution that could have influenced as- pects of macaque societies including species diversity, ecological breadth, female-biased adult sex ratio and demography, sexual dimorphism, and mitonuclear phylogenomics. / Thesis / Master of Science (MSc)

Cheetah (Acinonyx jubatus) persist under continued conservation threat in small populations mostly in protected areas in an historically reduced geographic range. Home range, a useful trait for threat assessment, species reintroduction, and population estimation, is plastic in cheetah with sizes ranging from 40 km2 to over 1000 km2 depending on location. Previous home range estimates for cheetah used the minimum convex polygon (MCP), assuming asymptotic home ranges and MCP insensitivity to sample size. They reported metrics of home range size and overlap based on only outline methods. I use 6 481 observations of 240 female and 315 male cheetah from > 60 matrilines over 25 years in the Serengeti Plains to investigate lifetime, core, yearly, and seasonal range size with kernel density estimation. I investigate autocorrelation using time to statistical independence of locations. I confront the assumption of asymptotic home ranges by testing the traditional and multiscaled home range predictions and provide a novel method for determining kernel asymptotes. I challenge the notion of Serengeti cheetah as a migratory carnivore with analyses of site fidelity and objectively defined core ranges. I assess year to year and seasonal location shifts, showing that yearly shifting lessens as females age. I provide quantitative evidence for philopatry in female- and juvenile dispersal in male cheetah of the Serengeti Plains. I use simple overlap metrics to show that overlap in lifetime and core ranges is greater in related than unrelated female pairs. I use multi-response permutation procedures (MRPP) to show that overlap in unrelated female pairs varies with season. I use correlation of utilization distributions to show that avoidance is apparent only in unrelated pairs of females. My results call into question previous MCP estimates of cheetah home range size, and provide guidance for future sampling of cheetah locations. My home range results will guide management of this imperiled species and my methodological findings may be general and applicable to a wide range of taxa. / Master of Science

No description available.

Competition among individuals over shared resources reveals asymmetries in quality resulting in the formation of dominance hierarchies. These hierarchies act as a mechanism for social selection by partitioning resources among group-living animals. The following chapters describe my dissertation research which investigates the factors contributing to competitive asymmetries among broodmates as well as the short- and long-term consequences of the early social environment for the cooperatively breeding red-cockaded woodpecker (Picoides borealis). My research revealed that fledgling red-cockaded woodpeckers form male-biased, linear dominance hierarchies. Among fledgling males,, high relative nestling condition strongly predicted fledgling dominance, and this condition–rank relationship persisted through independence. Male nestlings are slightly larger and heavier than females; however, the sexual size dimorphism in mass is only present in mixed-sex broods, suggesting that the subtle structural size advantage gives males a competitive advantage over their sisters. Conflict rates among siblings increased with decreasing targeted feeding rates, and dominant fledglings were able to secure more food from provisioning adults through scramble competition. First-year survival favored males over females and dominant males over subordinates. Females were more dispersive overall than males, and subordinate males were more likely to disperse than dominants. The social environment prior to fledging influenced male dispersal decisions and subordinates delayed dispersal in the spring in situations where all dominants died over the winter. The probability of delayed dispersal in females was higher for females raised without brood-mates in one of two populations included in a long-term demographic data analysis. The availability of breeding vacancies may explain the differences in female dispersal behavior according to social environment between these populations. This research contributes to a greater understanding of the relative contribution of intrinsic benefits versus extrinsic constraints as an influence on delayed dispersal decisions in red-cockaded woodpeckers. Inter- and intra-sexual social rank is correlated with individual access to natal food resources and the probability of first-year survival. The intrabrood variation in dispersal strategies driven by social rank is sufficient to regularly produce both dispersal strategies among males and provides additional support that delaying natal dispersal is the preferred strategy for males in this system. / Ph. D.

<p>Genetic variation within and among populations is a result of past and ongoing processes. Among the most important of such processes are dispersal, habitat fragmentation and selection. This thesis use neutral genetic variation as a tool to investigate these processes in three bird species.</p><p>In the Siberian jay, the timing of dispersal is dependent on social dominance among siblings. Mark-recapture data, radio-tracking and genetic variation was used to investigate whether timing of dispersal had an effect on dispersal distance. The results show that early dispersing individuals also disperse longer. In the same species, genetic correlation between neighbours was used to find areas with high production of philopatric individuals, which could be indicative of high habitat quality.</p><p>Great snipe populations in northern Europe have a breeding range divided into two regions. A Q_ST-F_STapproach was applied to study variation in selection between regions. Differentiation between the regions in neutral molecular markers was low, indicating high gene flow, or short time available for neutral divergence. Morphological divergence between the regions was high, and Q_ST > F_ST, which indicates divergent selection. Thus, neutral genetic markers can be misleading in identifying evolutionary significant units, and the Q_ST-F_ST approach might be valuable to identify targets for conservation.</p><p>Rock ptarmigan, or its ancestors, originated in Beringia, and spread throughout the Holarctic region. Their distribution has subsequently been affected by glaciations, most likely leading to withdrawals and re-colonisations. Neutral genetic variation among five populations around the northern Atlantic was investigated. There was strong genetic structure among the populations, and evidence that Scandinavian rock ptarmigan has been isolated from other populations for considerable time. Rock ptarmigan in Svalbard showed slightly lower genetic variation than others, and comparisons with other studies suggested an eastern colonisation route to Svalbard.</p>

Studies of the maternally inherited mitochondrial DNA in loggerhead sea turtles (Caretta caretta) demonstrate that females are philopatric, returning to nest in the region where they hatched. Eleven genetic stocks of maternal lineages have been identified in the Atlantic Ocean. An analysis of the conventionally-used 380 bp of the mitochondrial control region of a sample of individuals from the genetic stock of loggerheads in Mexico (N = 175) revealed 13 haplotypes. When a longer sequence read of 815 bp was analyzed, 17 haplotypes were uncovered. In the genetic stock of loggerheads in northwestern Florida (N = 25), three haplotypes were identified with both control region sequence lengths. Based on the currently known distributions of the three long CC-A1 and CC-A2 haplotypes, two of each are unique to Mexico. This makes the longer sequence reads useful for stock identification. Within Mexico, there was evidence of significant population structuring between Cozumel and the northern region of the sampling area on mainland Mexico (pairwise ϕST = 0.1003, p = 0.0197), but not after Bonferroni correction. A direct comparison of female and male nuclear microsatellite genotypes indicated male-biased dispersal between Mexico and northwestern Florida. Within Mexico, microsatellite analysis indicated significant structuring of females between sampling years and between the northern and the southern region of the sampling area on the mainland. Consequently, this genetic stock, while perhaps not in equilibrium, shows signs of female natal homing. An analysis of clutches indicated that significantly more clutches in Mexico had multiple paternity compared to the northwestern Florida (66% and 23%, respectively). The frequency of multiple paternity was not correlated with female abundance, nest density or sex ratio of reproductively successful individuals. There was no evidence of females benefiting through increased reproductive success from multiple paternity. This is consistent with other studies of sea turtles.

Genetic variation within and among populations is a result of past and ongoing processes. Among the most important of such processes are dispersal, habitat fragmentation and selection. This thesis use neutral genetic variation as a tool to investigate these processes in three bird species. In the Siberian jay, the timing of dispersal is dependent on social dominance among siblings. Mark-recapture data, radio-tracking and genetic variation was used to investigate whether timing of dispersal had an effect on dispersal distance. The results show that early dispersing individuals also disperse longer. In the same species, genetic correlation between neighbours was used to find areas with high production of philopatric individuals, which could be indicative of high habitat quality. Great snipe populations in northern Europe have a breeding range divided into two regions. A QST-FST approach was applied to study variation in selection between regions. Differentiation between the regions in neutral molecular markers was low, indicating high gene flow, or short time available for neutral divergence. Morphological divergence between the regions was high, and QST &gt; FST, which indicates divergent selection. Thus, neutral genetic markers can be misleading in identifying evolutionary significant units, and the QST-FST approach might be valuable to identify targets for conservation. Rock ptarmigan, or its ancestors, originated in Beringia, and spread throughout the Holarctic region. Their distribution has subsequently been affected by glaciations, most likely leading to withdrawals and re-colonisations. Neutral genetic variation among five populations around the northern Atlantic was investigated. There was strong genetic structure among the populations, and evidence that Scandinavian rock ptarmigan has been isolated from other populations for considerable time. Rock ptarmigan in Svalbard showed slightly lower genetic variation than others, and comparisons with other studies suggested an eastern colonisation route to Svalbard.

Grassland bird populations in North America are in steady decline. Despite declining faster and more consistently than any other group of birds, grassland songbird populations are relatively understudied and little is known about factors driving breeding-site philopatry and dispersal. Landscape and habitat composition may influence fidelity of grassland songbirds to a breeding area. As predicted by the theory of the <i>Ideal Free Distribution</i>, high-quality sites are likely to have a higher percentage of return breeders than low-quality sites because higher quality sites should have more or better-quality resources birds need for improved fitness. Using stable hydrogen isotope (äD) analysis, I approximated minimum fidelity rates of two grassland songbirds to two landscape (grass- vs crop-dominated landscapes) and two habitat (native grass vs planted grass) types. I hypothesized that grassland songbirds would return more readily to higher quality sites. For Spragues Pipit (<i>Anthus spragueii</i>), a habitat specialist, this would mean returning more readily to native grass habitat in grass dominated landscapes. I expected no difference in return rate of Savannah Sparrow (<i>Passerculus sandwichensis</i>), a habitat generalist, to either habitat or landscape. However, I found that the proportion of non-returning breeders was not influenced by landscape or habitat for either species. Furthermore, I examined attributes (distance from capture point to nearest crop and to the nearest road, as well as the percentage of native grass, planted grass, water and woody vegetation within landscape and territory buffers around the capture point) of the landscape and territory of each individual to determine if specific landscape or territory characteristics influenced their return rate to a breeding area. Neither species showed an affinity or aversion to any of the landscape or territory characteristics considered.<p> At a larger scale, geographical position within the breeding range may influence dispersal rates of migratory songbirds. Given that environmental factors often change in a clinal manner, central populations presumably experience the most favorable environmental conditions and peripheral populations the least favorable. Therefore, geographically peripheral locations likely occur in ecologically marginal or stressful conditions, resulting in higher dispersal rates of migratory birds. I examined the differences in dispersal rates of two grassland songbirds at two geographically distinct locations; one centrally located in the Spragues Pipit breeding range (Last Mountain Lake area, SK, Canada) and one at the periphery (Bowdoin National Wildlife Refuge, MT, USA). As expected, Spragues Pipits at the Bowdoin National Wildlife Refuge had a significantly larger dispersal rate than at the Last Mountain Lake area. Savannah Sparrow dispersal rates did not differ between locations at the more conservative outlier classification. These results provide some limited evidence that geographical position within the breeding range can influence dispersal rates.<p> Using äD analysis, I found that local amount-weighted growing-season deuterium in precipitation (äDp) at locations within grassland ecosystems differed from those long-term (45+ year) models described by stable hydrogen isotope ratio basemaps, illustrated in Hobson and Wassenaar (1997), Meehan et al. (2004) and Bowen et al. (2005). Therefore, I describe how äDp values were corrected from the long-term isoscape value predicted by Bowen et al. (2005). This method of determining year-specific local weighted growing-season äDp is an improvement upon the currently used Bowen et al. (2005) isoscape that is based on long-term precipitation patterns. To improve assignment of individuals to origins based on their äDf values, future research should incorporate year-to-year variation by applying year-specific corrections to the Bowen et al. (2005) isoscape.<p> More research is needed to determine the factors affecting the philopatry and dispersal of grassland songbirds in order to conserve them.

Spatial variation in density of organisms can lead to challenges in estimation of population size. Associated vital rates responsible for this variation also may vary geographically and in response to local ecological conditions, with the result that subunits of a metapopulation may have different trajectories. Both temporal and spatial variation in population size occurs not only as a result of additions through birth and deletions through death, but also from gains and losses arising from immigration and emigration, respectively. Although virtually all organisms have evolved mechanisms for dispersal, the role of movement in population dynamics has received far less attention than have contributions from recruitment and losses to mortality. I used mark-recapture techniques to make inferences about the role of movement in local population dynamics of Rosss Goose (Chen rossii) colonies by estimating rates of movement between breeding subpopulations in the Queen Maud Gulf metapopulation. I also assessed decision-based philopatry (i.e., the role of previous nesting outcome; sensu Hoover 2003) and a potential cost of reproduction to female geese through experimental manipulation of nesting success. <p>Previous nest fate influenced intra-colony dispersal as failed nesters moved further between consecutive nest sites, but inter-colony movement was not affected by previous nest fate. Regardless of previous nest fate, Rosss Geese did not exhibit philopatry to nest sites, or to breeding territories, suggesting that philopatry occurs at a larger spatial scale. Breeding success accounted for a detectable, but only small amount of variation (<11%) in dispersal distance within colonies. I suggest that temporal variation in habitat availability favors flexibility in settling patterns by geese in a changing matrix of habitat availability, governed largely by receding snow cover. Such flexibility is necessary for nesting as early as possible, because recruitment is strongly linked to timing of breeding by arctic-nesting geese. Colonial philopatry may be important not only for favorable nesting but also for access to high-quality feeding areas adjacent to colonies. Such feeding areas represent a predictable food resource important not only to growing goslings, but also adult survival regardless of the outcome of their breeding attempt. <p>I concluded from experimental manipulation that successful reproduction was encumbered with a cost to survival of females. I argue that such a cost of breeding is more likely to be incurred when climatic conditions during incubation are harsh, and when the breeding population is larger. <p>I did not find evidence for geographic variation in survival, but rates of philopatry varied markedly among colonies. The substantial exchange of females among breeding colonies (1) underscores the potential for dispersal to alter breeding distribution, (2) demonstrates that the influence of immigration on colony-specific rates of population growth was nontrivial, and (3) provides behavioral evidence for extensive gene flow resulting from female dispersal. Estimates of emigration and survival from my studies were used in combination with those for fecundity parameters and colony-specific population growth rates (lambda) to interpolate the role of immigration from a simple balance equation. During years for which rates of movement were estimated, immigration constituted 9-20% of lambda at the Karrak Lake colony, suggesting that movement was an important contribution to population growth.