Lisa Lyren - Academia.edu (original) (raw)

Papers by Lisa Lyren

PloS one, 2015

Abundance estimation of carnivore populations is difficult and has prompted the use of non-invasi... more Abundance estimation of carnivore populations is difficult and has prompted the use of non-invasive detection methods, such as remotely-triggered cameras, to collect data. To analyze photo data, studies focusing on carnivores with unique pelage patterns have utilized a mark-recapture framework and studies of carnivores without unique pelage patterns have used a mark-resight framework. We compared mark-resight and mark-recapture estimation methods to estimate bobcat (Lynx rufus) population sizes, which motivated the development of a new "hybrid" mark-resight model as an alternative to traditional methods. We deployed a sampling grid of 30 cameras throughout the urban southern California study area. Additionally, we physically captured and marked a subset of the bobcat population with GPS telemetry collars. Since we could identify individual bobcats with photos of unique pelage patterns and a subset of the population was physically marked, we were able to use traditional mar...

A finite mixture modeling approach. Ecological Applications VOL: pp-pp Appendix C: A demonstratio... more A finite mixture modeling approach. Ecological Applications VOL: pp-pp Appendix C: A demonstration of parameter estimation using simulated data.

Ecotoxicology, 2015

Anticoagulant rodenticides (ARs) are increasingly recognized as a threat to nontarget wildlife. H... more Anticoagulant rodenticides (ARs) are increasingly recognized as a threat to nontarget wildlife. High exposure to ARs has been documented globally in nontarget predatory species and linked to the high prevalence of an ectoparasitic disease, notoedric mange. In southern California, mange associated with AR exposure has been the proximate cause of a bobcat (Lynx rufus) population decline. We measured AR exposure in bobcats from two areas in southern California, examining seasonal, demographic and spatial risk factors across landscapes including natural and urbanized areas. The long-term study included bobcats sampled over a 16-year period (1997-2012) and a wide geographic area. We sampled blood (N = 206) and liver (N = 172) to examine exposure ante-and post-mortem. We detected high exposure prevalence (89 %, liver; 39 %, blood) and for individuals with paired liver and blood data (N = 64), 92 % were exposed. Moreover, the animals with the most complete sampling were exposed most frequently to three or more compounds. Toxicant exposure was associated with commercial, residential, and agricultural development. Bobcats of both sexes and age classes were found to be at high risk of exposure, and we documented fetal transfer of multiple ARs. We found a strong association between certain levels of exposure (ppm), and between multiple AR exposure events, and notoedric mange. AR exposure was prevalent throughout both regions sampled and throughout the 16-year time period in the long-term study. ARs pose a substantial threat to bobcats, and likely other mammalian and avian predators, living at the urban-wildland interface.

Biological Conservation, 2014

ABSTRACT Roads in urbanized areas can impact carnivore populations by constraining their movement... more ABSTRACT Roads in urbanized areas can impact carnivore populations by constraining their movements and increasing mortality. Bobcats (Lynx rufus) are felids capable of living in urban environments, but are sensitive to habitat fragmentation and, thus, useful indicators of landscape connectivity; in particular, bobcat habitat selection, movement, and mortality may be affected by roads. We analyzed movement patterns of 52 bobcats in southern California in three study sites and investigated: (1) how bobcats responded to two types of roads within their home ranges; (2) how they placed their home ranges with respect to roads within the study area; and (3) whether male and female bobcats differed in their behavioral responses to roads. Within home ranges, primary and secondary roads did not influence movements, but bobcats more frequently crossed secondary roads when road densities were higher within their home ranges, thus increasing mortality risk. However, road densities within each study site were several times higher than road densities within home ranges, suggesting bobcats selected against roaded areas in home-range placement. Male home ranges bordering roads were smaller than home ranges for other males, but male home ranges containing roads were larger than those without roads. Male bobcats also were more likely to cross roads than females, potentially reflecting larger male home range sizes. Our results suggest roads have important impacts on urban bobcats, with stronger effects on males than females, and continued efforts to mitigate the effects of roads on carnivores and other fragmentation-sensitive species would help promote connectivity conservation in urban systems.

Molecular Ecology, 2012

Urbanization can result in the fragmentation of once contiguous natural landscapes into a patchy ... more Urbanization can result in the fragmentation of once contiguous natural landscapes into a patchy habitat interspersed within a growing urban matrix. Animals living in fragmented landscapes often have reduced movement among habitat patches because of avoidance of intervening human development, which potentially leads to both reduced gene flow and pathogen transmission between patches. Mammalian carnivores with large home ranges, such as bobcats (Lynx rufus), may be particularly sensitive to habitat fragmentation. We performed genetic analyses on bobcats and their directly transmitted viral pathogen, feline immunodeficiency virus (FIV), to investigate the effects of urbanization on bobcat movement. We predicted that urban development, including major freeways, would limit bobcat movement and result in genetically structured host and pathogen populations. We analysed molecular markers from 106 bobcats and 19 FIV isolates from seropositive animals in urban southern California. Our findings indicate that reduced gene flow between two primary habitat patches has resulted in genetically distinct bobcat subpopulations separated by urban development including a major highway. However, the distribution of genetic diversity among FIV isolates determined through phylogenetic analyses indicates that pathogen genotypes are less spatially structured-exhibiting a more even distribution between habitat fragments. We conclude that the types of movement and contact sufficient for disease transmission occur with enough frequency to preclude structuring among the viral population, but that the bobcat population is structured owing to low levels of effective bobcat migration resulting in gene flow. We illustrate the utility in using multiple molecular markers that differentially detect movement and gene flow between subpopulations when assessing connectivity.

Journal of Wildlife Diseases, 2007

Although lentiviruses similar to feline immunodeficiency virus (FIV) are known to infect numerous... more Although lentiviruses similar to feline immunodeficiency virus (FIV) are known to infect numerous felid species, the relative utility of assays used for detecting lentiviral infection has not been compared for many of these hosts. We tested bobcats (Lynx rufus), pumas (Felis concolor), and ocelots (Leopardus pardalis) for exposure to lentivirus using five different assays: puma lentivirus (PLV), African lion lentivirus (LLV), and domestic cat FIV-based immunoblots, a commercially available enzyme-linked immunosorbent assay (ELISA) kit, and nested polymerase chain reaction (PCR). Puma lentivirus immunoblots identified more seropositive individuals than the other antibody-detection assays. The commercial ELISA provided a fair ability to recognize seropositive samples when compared with PLV immunoblot for screening bobcats and ocelots, but not pumas. Polymerase chain reaction identified fewer positive samples than PLV immunoblot for all three species. Immunoblot results were equivalent whether the sample tested was serum, plasma, or whole blood. The results from this study and previous investigations suggest that the PLV immunoblot has the greatest ability to detect reactive samples when screening wild felids of North America and is unlikely to produce false positive results. However, the commercial ELISA kit may provide an adequate alternative for screening of some species and is more easily adapted to field conditions.

Journal of Virology, 2007

With the exception of human immunodeficiency virus (HIV), which emerged in humans after cross-spe... more With the exception of human immunodeficiency virus (HIV), which emerged in humans after cross-species transmissions of simian immunodeficiency viruses from nonhuman primates, immunodeficiency viruses of the family Lentiviridae represent species-specific viruses that rarely cross species barriers to infect new hosts. Among the Felidae, numerous immunodeficiency-like lentiviruses have been documented, but only a few cross-species transmissions have been recorded, and these have not been perpetuated in the recipient species. Lentivirus seroprevalence was determined for 79 bobcats (Lynx rufus) and 31 pumas (Puma concolor) from well-defined populations in Southern California. Partial genomic sequences were subsequently obtained from 18 and 12 seropositive bobcats and pumas, respectively. Genotypes were analyzed for phylogenic relatedness and genotypic composition among the study set and archived feline lentivirus sequences.

Journal of Virology, 2014

PloS one, 2012

Anthropogenic landscape change can lead to increased opportunities for pathogen transmission betw... more Anthropogenic landscape change can lead to increased opportunities for pathogen transmission between domestic and non-domestic animals. Pumas, bobcats, and domestic cats are sympatric in many areas of North America and share many of the same pathogens, some of which are zoonotic. We analyzed bobcat, puma, and feral domestic cat samples collected from targeted geographic areas. We examined exposure to three pathogens that are taxonomically diverse (bacterial, protozoal, viral), that incorporate multiple transmission strategies (vector-borne, environmental exposure/ingestion, and direct contact), and that vary in species-specificity. Bartonella spp., Feline Immunodeficiency Virus (FIV), and Toxoplasma gondii IgG were detected in all three species with mean respective prevalence as follows: puma 16%, 41% and 75%; bobcat 31%, 22% and 43%; domestic cat 45%, 10% and 1%. Bartonella spp. were highly prevalent among domestic cats in Southern California compared to other cohort groups. Feline...

Emerging Infectious Diseases, 2009

Plague seroprevalence was estimated in populations of pumas and bobcats in the western United Sta... more Plague seroprevalence was estimated in populations of pumas and bobcats in the western United States. High levels of exposure in plague-endemic regions indicate the need to consider the ecology and pathobiology of plague in nondomestic felid hosts to better understand the role of these species in disease persistence and transmission.

Ecological Applications, 2013

Because of its role in many ecological processes, movement of animals in response to landscape fe... more Because of its role in many ecological processes, movement of animals in response to landscape features is an important subject in ecology and conservation biology. In this paper, we develop models of animal movement in relation to objects or fields in a landscape. We took a finite mixture modeling approach in which the component densities are conceptually related to different choices for movement in response to a landscape feature, and the mixing proportions are related to the probability of selecting each response as a function of one or more covariates. We combined particle swarm optimization and an expectationmaximization (EM) algorithm to obtain maximum-likelihood estimates of the model parameters. We used this approach to analyze data for movement of three bobcats in relation to urban areas in southern California, USA. A behavioral interpretation of the models revealed similarities and differences in bobcat movement response to urbanization. All three bobcats avoided urbanization by moving either parallel to urban boundaries or toward less urban areas as the proportion of urban land cover in the surrounding area increased. However, one bobcat, a male with a dispersal-like large-scale movement pattern, avoided urbanization at lower densities and responded strictly by moving parallel to the urban edge. The other two bobcats, which were both residents and occupied similar geographic areas, avoided urban areas using a combination of movements parallel to the urban edge and movement toward areas of less urbanization. However, the resident female appeared to exhibit greater repulsion at lower levels of urbanization than the resident male, consistent with empirical observations of bobcats in southern California. Using the parameterized finite mixture models, we mapped behavioral states to geographic space, creating a representation of a behavioral landscape. This approach can provide guidance for conservation planning based on analysis of animal movement data using statistical models, thereby linking connectivity evaluations to empirical data.

The impact of human land uses on ecological systems typically differ relative to how extensively ... more The impact of human land uses on ecological systems typically differ relative to how extensively natural conditions are modified. Exurban development is intermediate-intensity residential development that often occurs in natural landscapes. Most species-habitat models do not evaluate the effects of such intermediate levels of human development and even fewer predict how future development patterns might affect the amount and configuration of habitat. We addressed these deficiencies by interfacing a habitat model with a spatially-explicit housing-density model to study the effect of human land uses on the habitat of pumas (Puma concolor) in southern California. We studied the response of pumas to natural and anthropogenic features within their home ranges and how mortality risk varied across a gradient of human development. We also used our housing-density model to estimate past and future housing densities and model the distribution of puma habitat in 1970, 2000, and 2030. The natural landscape for pumas in our study area consisted of riparian areas, oak woodlands, and open, conifer forests embedded in a chaparral matrix. Pumas rarely incorporated suburban or urban development into their home ranges, which is consistent with the hypothesis that the behavioral decisions of individuals can be collectively manifested as population-limiting factors at broader spatial scales. Pumas incorporated rural and exurban development into their home ranges, apparently perceiving these areas as modified, rather than non-habitat. Overall, pumas used exurban areas less than expected and showed a neutral response to rural areas. However, individual pumas that selected for or showed a neutral response to exurban areas had a higher risk of mortality than pumas that selected against exurban habitat. Exurban areas are likely hotspots for pumahuman conflict in southern California. Approximately 10% of our study area will transform from exurban, rural, or undeveloped areas to suburban or urban by 2030, and 35% of suitable puma habitat on private land in 1970 will have been lost by 2030. These land-use changes will further isolate puma populations in southern California, but the ability to visualize these changes had provided a new tool for developing proactive conservation solutions. . 2010. Interfacing models of wildlife habitat and human development to predict the future distribution of puma habitat. Ecosphere 1(1):art4.

Herpetological Monographs, 2014

We surveyed an area of ,260 km 2 in the western Mojave Desert to evaluate relationships between c... more We surveyed an area of ,260 km 2 in the western Mojave Desert to evaluate relationships between condition of Agassiz's Desert Tortoise populations (Gopherus agassizii) and habitat on lands that have experienced three different levels of management and protection. We established 240 1-ha plots using random sampling, with 80 plots on each of the three types of managed lands. We conducted surveys in spring 2011 and collected data on live tortoises, shell-skeletal remains, other signs of tortoises, perennial vegetation, predators, and evidence of human use. Throughout the study area and regardless of management area, tortoise abundance was positively associated with one of the more diverse associations of perennial vegetation. The management area with the longest history of protection, a fence, and legal exclusion of livestock and vehicles had significantly more live tortoises and lower death rates than the other two areas. Tortoise presence and abundance in this protected area had no significant positive or negative associations with predators or human-related impacts. In contrast, the management area with a more recent exclusion of livestock, limited vehicular traffic, and with a recent, partial fence had lower tortoise densities and high death rates. Tortoise abundance here was negatively associated with vehicle tracks and positively associated with mammalian predators and debris from firearms. The management area with the least protection-unfenced, with uncontrolled vehicle use, sheep grazing, and high trash counts-also had low tortoise densities and high death rates. Tortoise abundance was negatively associated with sheep grazing and positively associated with trash and mammalian predator scat.