Gopher tortoises are ecosystem engineers whose burrows provide habitat to >350 species. Prescribed fire is used to manage tortoise habitat, but fire timing is mostly restricted to the vegetative dormant season. Restricted fire timing in combination with white-tailed deer competition may negatively affect tortoises. To address these concerns, we quantified these species’ dietary overlap and conducted a field experiment to examine impacts of fire phenology on plants and animals. Although tortoises and deer consumed ~75% of the same plants, their diets were statistically dissimilar. Fire altered plant community composition and increased foliar crude protein and phosphorus while decreasing calcium. Deer detections were unaffected, but tortoises were detected more in fire treatment plots. We simultaneously monitored burrow and surface temperatures and found burrows provide thermal refuge. Our data suggests that fire timing affects plants in ways that can affect gopher tortoises, and burrows may mitigate some negative impacts of climate change.

Understanding worldwide declines in reptiles due to factors such as habitat loss and emerging infectious disease has become an increasingly important focus in conservation biology. Here, I use novel approaches from the field of landscape genetics to combine spatial genetic data with landscape data at both regional and local spatial scales to explore natural and anthropogenic landscape features that shape population structure and gene flow in a federally threatened reptile, Gopherus polyphemus. I also utilize approaches from the field of spatial epidemiology to examine the extent to which environmental variables can be used to predict the seroprevalence of an associated pathogen Mycoplasma agassizzi in gopher tortoise populations. Using mitochondrial data, I find evidence of a historical barrier to gene flow that appears to coincide with the Apalachicola River. I also discover low genetic diversity and evidence of population bottlenecks in the western portion of the range. My evaluation at the regional scale shows that dispersal is limited by geographic distance, areas of low elevation and major roads ways. A finescale study reveals no evidence of spatial genetic structure within a 14 x 35 km area. However, soil type is significantly correlated with pairwise genetic distances between individuals, suggesting that this variable influences fine-scale population structure in the gopher tortoise. In addition to soil, high density canopy cover is an important factor impeding gene flow at the local level for females, while land cover type explains some of the genetic variance between males. Finally, temperature and precipitation appear to be important predictors of the seroprevalence of the pathogen Mycoplasma agassizii in gopher tortoises. The probability of an individual testing seropositive for exposure to this disease increased with high temperature and low precipitation values. The methods presented in this dissertation evaluate novel approaches for assessing the influence of environmental variables on population structure, dispersal and disease occurrence and could be applied in future studies of other threatened and endangered taxa.

Gopherus polyphemus populations are diminishing throughout their range due to urbanization, fragmentation, and poor management of habitats. Increased population densities, poor habitat quality, and lack of fire may influence disease transmission. Parasite roles within wild tortoise populations are largely unknown, despite evidence these pathogens may pose health risks. This study provides a baseline of gopher tortoise endoparasites across South Florida and reports on how varying environmental and tortoise characteristics may affect endoparasite species prevalence, approximate loads, and overall distributions. Tortoise fecal samples were taken from five differing SF habitats. Seven species of intestinal parasites were discovered from 123 tortoises. Identified parasites include endo-helminths such as cyathostomes, pinworms, ascarids, flukes, and protozoans including Eimeria, Cryptosporidium, and Amoeba species. Significant differences in parasite prevalence and loads were seen between sampling years, seasons, size classes, and sites, however, overall parasite distributions suggest parasitism remains relatively ubiquitous throughout most host and site characteristics. / Includes bibliography. / Thesis (M.S.)--Florida Atlantic University, 2017. / FAU Electronic Theses and Dissertations Collection

Many Gopher Tortoise populations are in steep decline throughout Florida, and various measures have been attempted to curb the trend. One such measure is to relocate tortoises to protected recipient sites on private lands. The majority of private lands in Florida are used for cattle, however, production and the effect of cattle production on tortoises is not known. Here, I tested six parameters of tortoise behavior by monitoring 1403 gopher tortoises released at the Barthle Brothers Ranch, Pasco County Florida, between August 2009 and December 2012. The parameters tested were (1) burrow density, (2) burrow spacing, (3) burrow relocation, (4) body condition, (5) individual growth rate, and (6) recruitment (addition of young to the population). I used telemetry techniques to observe movement and burrow placement as it related to cattle activity and burrow impacts, and collected morphological data to determine changes in body condition and growth. I used burrow surveys and analyzed movement patterns to interpret the propensity for tortoises to place burrows where cattle may or may not congregate. Lastly, I investigated recruitment of juveniles into the population and followed the mortality of resident and relocated tortoises in all treatment plots. I found that burrow density, distance moved when relocating to new burrows, and avoidance of cattle were not distinguishably different within or between the plots. Burrow relocation, however, was more frequent outside the exclosures. The change in body condition did not differ between males and female or resident and relocated individuals. Females within the exclosure did not grow at a rate different than those outside the exclosure although translocated females grew faster than resident females. Densities of non-adult burrows inside the exclosures were not different then densities outside the exclosure. Eleven percent of tortoises relocated to the ranch died during the project. Although we have no evidence that cattle and tortoise cannot successfully coexist, a number of circumstances prevented rigorous testing of our hypotheses, predominately the failure of the silt fence used to enclose the treatment plots. Using a trespass-proof perimeter fence would allow a better assessment of the actual interaction between the cattle and tortoises and may shed new light on the lack of recruitment and the decline of juvenile tortoises relocated to the ranch. Without recruitment of individuals back into a population, or the persistent of reproducing adults within the population, any efforts to curb the downward trend in gopher tortoise numbers by relocating tortoises to actively grazed pasture is futile.

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The Mississippi gopher frog (MGF, Lithobates sevosa) is a critically endangered amphibian which requires the use of assisted reproductive technologies (ART) to successfully reproduce in captivity. Several challenges to successfully breeding MGFs were investigated to improve reproduction in this species. Accurate identification of biological sex is a necessary first step to reproducing species, thus several non-invasive techniques for sex identification were compared in the weakly dimorphic MGF. Reliably obtaining eggs from female MGFs has also proved difficult, therefore, four exogenous hormone therapies were compared for their success to induce ovulation. Ultrasound imaging was used alongside hormone treatments to improve understanding of ovarian response to hormone treatment. Lastly, short-term cold storage of spermic urine was studied to determine the feasibility of this technique for MGF gamete storage. Findings from these research projects are important for the successful conservation of the MGF by aiding in the production offspring for future reintroduction programs.

Recent studies have shown environmental factors influence life history traits in fishes. Understanding intraspecific variability of life history characteristics and condition is necessary to determine local fisheries management strategies. Gopher rockfish, Sebastes carnatus, comprise 50% of the estimated shallow nearshore recreational rockfish catch in California, yet insufficient local data exist regarding life history traits and condition of this species. Our study locally defines growth parameters (maximum size and age), size (age) at reproductive maturity, and condition (hepatosomatic indices) for gopher rockfish in south central California. The growth parameter values of gopher rockfish from our study are similar to previously published research. However, our data also indicate that the current local gopher rockfish stock in south central California reaches reproductive maturity at a larger size and an older age when compared to gopher rockfish sampled throughout central California (primarily in Monterey) between 1977-1982. Furthermore, we examined spatial and temporal differences in life history information, within and outside of two south central California Marine Protected Areas (MPAs) established in 2007, between two time periods. Our data show that the size and longevity of fish has increased after the establishment of MPAs.

Gopherus polyphemus, commonly known as the Gopher Tortoise, is a dryland reptile native to the southeastern United States. It is commonly a resident of longleaf pine and dry oak sand hill habitats. It is considered a keystone species because they dig deep burrows that provide shelter to them as well as many other animals. Habitat loss, fragmentation, and disease are major threats and have caused this species to be federally listed as a threatened species under the Endangered Species Act (ESA). Disease is a major threat to the gopher tortoise’s survival, and with declining populations, the need to investigate pathogens is crucial. Herpesvirus, is known to contribute to upper respiratory tract diseases (URTD) in G. polyphemus and is the primary focus of this project. Due to high mutation rates in the virus, a modified version of PCR, nested PCR, was conducted on eye and nose swabs and blood samples obtained from G. polyphemus to detect the presence of the alpha herpesvirus pathogen. The positive samples were then sent for genetic sequencing to confirm the occurrence of the pathogen. The detectability of Herpesvirus in eye and nose swabs was compared to blood and lymph samples and statistical tests concluded that both sample types had the same detectability.

Gopher tortoise (Gopherus polyphemus; hereinafter, tortoise) is listed as threatened under the Endangered Species Act in the western portion of its range. Across the species’ range, approximately 70 % of potential habitat is privately owned, and these properties are often managed primarily for timber production. However, tortoise ecology on private, working forest landscapes remains poorly understood. To provide a better understanding of tortoise response to active forest management, I evaluated population demographics, movement ecology, and habitat selection of two tortoise populations: former Ben’s Creek Wildlife Management Area (BC) in Washington Parish, Louisiana and Perry County Gopher Tortoise Management Unit (PCGTMU) in Perry County, Mississippi. At BC, tortoises were generally clustered along utility rights-of- way and roadways. At PCGTMU, tortoises were clustered within forest stands with high quality soils. Low recruitment has been documented at BC for the last 25 years. However, PCGTMU appears to have a stable population with active recruitment.

This thesis evaluates the interaction between four habitat factors vital to the gopher tortoise in Florida. Federally and state listed as threatened throughout its entire range, the gopher tortoise is vital to protect, not only for itself individually but its burrows provide an essential habitat to over 300 species making it a key stone species within its environment. Historic habitat modeling methods are reviewed for the gopher tortoise to highlight the gap on this topic. This research expanded on the methods utilized by Baskaran et al. (2006) evaluating the soil, landcover, percentage of canopy cover and the depth to water table habitat factors key to the gopher tortoise. Statistical analysis was used to establish the interactions using a regression type analysis of the presence/absence data relative to the four factors. A probability map for the study site was then computed from the results. The Analysis of Deviance results for the statistical model with land cover type as an independent variable and a 3-way interaction term for the other factors found that the land cover term was significant as an independent variable and the 3-way interaction of the other 3 habitat factors was significant. This result demonstrates that there is in fact an interaction between the habitat factors influencing the location of gopher tortoises. This finding is significant in future gopher tortoise research as it indicates that habitat factors evaluated individually may not be as important as the interactions between the factors. By understanding the interactions between the habitat factors, the FWC can work alongside other agencies to ‘increase and improve’ these key habitat areas preventing them from destruction. The map results also help pinpoint those fragmented potential habitat sites which are most at risk from full destruction and loss allowing agencies the work on protecting and expanding the suitable habitat landscape in order to ‘enhance and restore’ the gopher tortoise populations residing there, helping them to ‘maintain the gopher tortoise’s function as a keystone species’