Kangaroo rats (Dipodomys spp.) are frequently characterized as keystone species for their role in altering soil characteristics, changing habitat structure through seed consumption and dispersal, and being important primary consumers in their ecosystem. They are arid adapted and known to forage in areas with sparse vegetation. Studies suggests densely vegetated habitat to be unsuitable for kangaroo rats because plants are an impediment to their locomotion and predator avoidance behaviors. This study focuses on an invasive grass, South African Veldt (Ehrharta calycina), that converts landscapes with sparse vegetation into dense grassland habitats, and the Lompoc kangaroo rat (Dipodomys heermanni arenae) that occupies some of those modified landscapes. I explored the proximate effects of Veldt grass by assessing the locomotion of D.h. arenae in three Veldt grass densities. I hypothesized that Veldt grass influences kangaroo rat locomotion, but that performance could also be influenced by experience with the grass. Kangaroo rats with long-term experience with Veldt grass (i.e., those occupying a habitat containing Veldt grass) and short-term experience (two-night habituation in an artificial Veldt grass patch) were tested by pursing the animals through runways of different grass densities and measuring the amount of time spent crossing the runway, amount of time spent stopped, average velocity, and amount of motivation required to initiate and sustain movement. I also monitored habitat use during the two-night habituation period in order to assess habitat utilization among three Veldt grass density habitat patches. I hypothesized that Veldt grass may influence normal habitat utilization patterns in D.h. arenae: specifically, the avoidance of the densest habitats and preference or disproportionate utilization of the most open habitat. I found, when the animals were left alone to forage and explore, they spent significantly more time in habitat patches containing Veldt grass than in a control patch containing zero percent cover. However, in locomotion trials, Veldt grass had a negative effect on locomotory performance. These effects seem to scale with grass density, and were ameliorated to some degree by familiarization: animals from a Veldt grass habitat of origin performed better in novel Veldt grass templates than animals from a non-Veldt habitat of origin; however, both groups performed equally well after two nights’ habituation to the templates. These results suggest that learning occurred in two nights and that it increased the kangaroo rats’ ability to locomote through the grass when pursued. I note that performance studies often do not take into account the amount of motivation employed to initiate and sustain running of the test animals, and suggest that this be considered in future studies. Furthermore, the learning capacity of a kangaroo rat, as well as a community level perspective that considers neutral or even positive trophic interactions among natives and invasives, must be considered in conservation and management decisions in the future.

Global climate change is already contributing to the extirpation of numerous species worldwide, and sensitive species will continue to face challenges associated with rising temperatures throughout this century and beyond. It is especially important to evaluate the thermal ecology of endangered ectotherm species now so that mitigation measures can be taken as early as possible. A recent study of the thermal ecology of the federally endangered Blunt-Nosed Leopard Lizard (Gambelia sila) suggested that they face major activity restrictions due to thermal constraints in their desert habitat, but that large shade-providing shrubs act as thermal buffers to allow them to maintain surface activity without overheating. We replicated this study but added a population of G. sila with no access to large shrubs to facilitate comparison of the thermal ecology of G. sila in shrubless and shrubbed populations. We found that G. sila without access to shrubs spent more time sheltering inside rodent burrows than lizards with access to shrubs, especially during the hot summer months. Lizards from a shrubbed population had higher midday body temperatures and therefore poorer thermoregulatory accuracy than G. sila from a shrubless population, suggesting that greater surface activity may represent a thermoregulatory tradeoff for G. sila. Lizards at both sites are currently constrained from using open, sunny microhabitats for much of the day during their short active seasons, and our projections suggest that climate change will exacerbate these restrictions and force G. sila to use rodent burrows for shelter even more than they do now, especially at sites without access to shrubs. The continued management of shrubs and of burrowing rodents at G. sila sites is therefore essential to the survival of this endangered species.

Raptor nests on human-built structures represent a significant source of conflict as they can result in bird mortality, fires, structure damage, service distribution, or power outages when falling nest materials or animals connect with energized conductors. Power companies, such as the Tennessee Valley Authority (TVA), wish to mitigate these conflicts to avoid service disruptions. In this dissertation, I present my work towards understanding and mitigating the interactions between Ospreys (Pandion haliaetus) and human-made structures. To achieve this, I explored multiple elements of conflict identification, monitoring, and basic ecology of the target species to better inform conflict mitigation. In Chapter I, I modelled the influence of suitable habitat and transmission infrastructure distribution on the potential risk of nest-infrastructure conflict within the TVA power service area. My integrative model would be most useful to utilities when adjacent (i.e., within 10 km) areas to ‘risky’ zones are also considered when looking at mitigation efforts and pre-development planning. Going forward, similar models for other species and for distribution structures may benefit utilities such as TVA. In Chapter II, I aimed to identify the most suitable nest monitoring technique for Ospreys, as nest information is required to make informed decisions for conflict mitigation (e.g., nest removal). I found that unoccupied aircraft systems, or drones, are less disturbing and more time-efficient than other methods tested. In the last two chapters, I focused on obtaining detailed information on the basic ecology of Ospreys in the southeastern United States, which represent an understudied population. My findings in Chapter III contribute to general migration ecology theory, identify key stopover areas for Ospreys in Florida, provide valuable comparisons for further investigations, highlight areas for future research, and identify possible metrics relevant to conservation and management action. Lastly, I quantified the genetic diversity and structure of southeastern Ospreys to generate hypotheses for future testing and provide valuable comparisons for further investigations. While gene flow appears to be high and sampled regions show little genetic differentiation, more research is required to elucidate patterns of cryptic population structure and provide concrete implications for management decisions (e.g., source population for translocation programs).

The introduction of nonnative salmonids into Southern Appalachia may pose a threat to resident salamander populations. In recent years, the stocking and encroachment of rainbow trout (Oncorhynchus mykiss) into headwaters where the black-bellied salamander (Desmognathus quadramaculatus) and brook trout (Salvelinus fontinalis) naturally coexist has raised concerns. In aquatic prey, predator-avoidance responses are primarily influenced through the detection of chemical cues released from predators. The objective of this study was to determine how co-occurrence with a predator influences black-bellied salamander predator recognition behavior. To evaluate this, salamander activity metrics (general activity, number of movements, and latency to move) were recorded before and after exposure to either native trout predator cue (brook), introduced trout predator cue (rainbow), or conditioned tap water (control). Larvae were collected from different streams based on their trout predator assemblage with larvae coming from brook, rainbow, rainbow/brook, and no trout stream reaches. Our results show that larvae that co-occur with trout reduced their activity when exposed to brook trout predator cue, but their response to rainbow trout predator cue depended on their previous co-occurrence. Larvae from areas with only brook trout exhibited a weak predator-avoidance when exposed to rainbow trout predator cue. A follow-up test to determine the influence of alarm cue on predator response in these larvae indicated that the alarm cue enhanced the response to the rainbow trout predator.

Bat populations in the eastern United States are currently declining at unprecedented rates as a result of habitat loss, commercial wind energy development, and white-nose syndrome. Effective conservation of these declining populations requires knowledge of several aspects of summer and winter ecology, including daytime habitat use (day-roost selection and social behaviors), nocturnal habitat use (foraging habitat selection, prey selection, and prey abundance), and winter hibernation (torpor) patterns. This dissertation addresses these questions for Rafinesque’s big-eared bat (Corynorhinus rafinesquii), a species of conservation concern in the southeastern United States. Kentucky represents the northern edge of the range of Rafinesque’s big-eared bat, and summer and winter behaviors in Kentucky are likely to differ from what has been observed in southern portion of the range, where available habitats and climate are different. My research occurred in two study areas in Kentucky, Mammoth Cave National Park in central Kentucky, and the Ballard Wildlife Management areas in western Kentucky. This dissertation includes all of the work done in western Kentucky, where I radio-tagged 48 adult big-eared bats and documented daytime and nighttime habitat use. Also included is a portion of the work done in central Kentucky, focusing on hibernation patterns of 14 adult big-eared bats radio-tagged during the winter at Mammoth Cave. Data disseminated in this dissertation provide insights into the summer and winter ecology of Rafinesque’s big-eared bat in Kentucky, and can be used to manage populations threatened by habitat loss and white-nose syndrome.

Bayou St. John (BSJ) and City Park Lakes and Lagoons (CPLL) are urban waterways in New Orleans, Louisiana. I studied habitat selection of red drum in BSJ, and fish assemblage change in BSJ and CPLL over 40 years. Temperature was found to be the best predictor of red drum habitat selection in Bayou St. John, while salinity and change in depth also were found to be good predictors for certain sites. Potential prey item abundance did not appear to influence habitat selection. Using data from 1971 – 2010, nearshore habitats in CPLL were affected by Hurricane Katrina, but have sense recovered and nearshore habitats in BSJ were found to have decreased diversity. Pelagic habitats in both areas were found stable across 40 years. Since 2006, nearshore assemblages were similar for CPLL and BSJ with a decrease in fishes from Order: Cyprinodontiformes and an increase in other fishes seen across years.

The butterflies in the genus Hamadryas are popular and noticeable representatives of the Neotropical Lepidoptera fauna. After a thorough taxonomic revision, 20 species were acknowledged within the genus, however no hypothesis of their phylogenetic relationship was proposed. The present dissertation provides a step further into the understanding of this fascinating group of butterflies not only by proposing the first phylogenetic hypothesis for the genus based on morphological and molecular data, but also by exploring for the first time in a group of butterflies the potential effect of venation associated with an specific behaviour on wing shape. Furthermore, this dissertation provides testable evolutionary hypotheses about the pattern of change for some of their most interesting natural history characters such as sound production and sexual dimorphism. The dissertation is organized in three chapters that can be visualized as manuscripts ready for publication; the first of these being already published (Garzón-Orduña, 2012).

Quantifying the impacts of restoration on coastal waterways is crucial to understanding their effectiveness. Here, I look at the impacts of multiple restoration projects on urban waterways within the city limits of New Orleans, LA, with an emphasis on the response of fishes. First I report the effects of two projects designed to improve exchange down estuary on the hydrologic characteristics of Bayou St. John (BSJ). Within BSJ, flow is dominated by subtidal wind driven processes. Removal of an outdated flood control structure did not appear to alter exchange in BSJ, but removal combined with sector gate openings did. I also refined a three dimensional hydrodynamic model of this system to have accurate predictions of velocity and elevation. Temperature and salinity were difficult to constrain with this model. Solutions of this model were used to compare flow metrics, along with linearly interpolated temperature, and other variables to Red Drum (Sciaenops ocellatus) activity and movement patterns. Relationships between Red Drum activity and velocity suggested a response to subtidal, wind driven flow. Overall, high Sedentariness, a measure of inactivity, was found suggesting high levels of site fidelity. Higher mean Sedentariness during the night was also found. I also used a pseudo-BACI design to analyze the fish assemblage response to removal of an outdated flood control structure and the impacts of sector gate openings on fish guild species richness in BSJ. Limited differences were found when comparing fish assemblages before and after removal, but these differences were likely due to a decrease in salinity not restoration efforts. No significant differences in Freshwater or Estuarine fish guild species richness was observed for any of the control or impact sites. Marine fish species richness was found to be higher immediately following sector gate openings at the site closest to the structure, suggesting an initial pulse of young marine organisms is provided via these events. The findings here can be used to optimize management of exchange flow in coastal impounded waterways.

Few studies have rigorously assessed the adaptive value of diel rhythms in animals. We laid the groundwork for assessing the adaptive rhythm hypothesis by assaying diel rhythms of foraging and antipredator behavior in the orb-weaving spider Cyclosa turbinata. When confronted with a predator stimulus in experimental arenas, C. turbinata exhibited thanatosis behavior more frequently and for longer durations during the day. However, assays of antipredator response within webs revealed more complex diel patterns of avoidance behaviors and no pattern of avoidance behavior duration. Assays of prey capture behavior found that the likelihood of exhibiting prey capture behavior varied significantly across times of day and test subjects, but only test subject predicted attack latencies. Although C. turbinata foraging aggression changed over the diel cycle, we found no evidence of a trade-off between foraging behavior and predator vigilance. However, overall patterns of vigilance may be masked by diel changes in antipredator strategies.

The ant colony, known as a self-organized system, can adapt to the environment by a series of negative and positive feedbacks. There is still a lack of mechanistic understanding of how the factors, such as temperature and food, coordinate the labor of ants. According to the Metabolic Theory of Ecology (MTE), the metabolic rate could control ecological process at all levels. To analyze self-organized process of ant colony, we constructed an agent-based model to simulate the energy and population dynamics of ant colony. After parameterizing the model, we ran 20 parallel simulations for each experiment and parameter sweeps to find patterns and dependencies in the food and energy flow of the colony. Ultimately this model predicted that ant colonies can respond to changes of temperature and food availability and perform differently. We hope this study can improve our understanding on the self-organized process of ant colony.