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This paper summarizes the results of Bd and Bsal testing of 76 Gulf Coast Waterdogs captured from southeast Louisiana.

As the spatial and temporal scale of ecological research expands, there is increasing need for methods that integrate multiple data types into a single analytical framework. Current work on this topic primarily focuses on combining capture-recapture data from marked individuals with other data types into integrated population models. Yet, studies of species distributions and trends often rely on data from unmarked individuals across broad scales where local abundance and environmental variables may vary. We present a modeling framework for integrating detection/nondetection and count data into a single analysis to estimate population dynamics, abundance, and individual detection probabilities during sampling. Our dynamic population model assumes that site-specific abundance can change over time according to survival of individuals and gains through reproduction and immigration. The observation process for each data type is modeled by assuming that every individual present at a site has an equal probability of being detected during sampling processes. We examine our modeling approach through a series of simulations illustrating the relative value of count versus detection/nondetection data under a variety of parameter values and survey configurations. We also provide an empirical example of the model by combining long-term detection/nondetection data (1995-2014) with newly collected count data (2015-2016) from a growing population of barred owls (Strix varia) in the Pacific Northwest to examine the factors influencing population abundance over time. Our model provides a foundation for incorporating unmarked data within a single framework, even in cases where sampling processes yield different detection probabilities. This approach will be useful for survey design and to researchers interested in incorporating historical or citizen science data into analyses focused on understanding how demographic rates drive population abundance.

Although not yet detected in the United States, the emergence of Bsal (a fungal pathogen) could threaten the salamander population, which is the most diverse in the world. The spread of Bsal likely will lead to more State and federally listed threatened or endangered amphibian species, and associated economic effects. Because of concern expressed by resource management agencies, the U. S. Geological Survey has made Bsal and similar pathogens a priority for research.

Diverse bacteria inhabit amphibian skin, some of which inhibit growth of the fungal pathogen, Batrachochytrium dendrobatidis (Bd). Yet, there has been no systematic survey of anti-Bd bacteria across localities, species and elevations. This is important given geographic and taxonomic variation in amphibian susceptibility to Bd. Our sites were within the Appalachian Mountains where previous sampling indicated low Bd prevalence. We determined the number and identity of anti-Bd bacteria on 61 Plethodon salamanders (37 P. cinereus, 15 P. glutinosus, 9 P. cylindraceus) using culturing methods and 16S rDNA sequencing. We sampled co-occurring species at three localities, and P. cinereus along an elevational gradient (700 ? 1000 masl) at one locality. We identified 50 anti-Bd bacterial OTUs and found that the degree of Bd inhibition was not correlated with relatedness. Five anti-Bd bacteria occurred on multiple species at multiple localities, but none were shared among all species and localities. Prevalence of
36 anti-Bd bacteria was higher at Shenandoah NP, VA, with 96% (25/26) of salamanders hosting at least one anti-Bd bacteria compared to 50% (7/14) at Catoctin MP, MD and 38% (8/21) at Mt. Rogers NRA, VA. At the individual level, salamanders at Shenandoah NP had more anti-Bd bacteria per individual (μ = 3.3) than those at Catoctin MP (μ = 0.8) and at Mt. Rogers NRA (μ = 0.4). All salamanders tested negative for Bd. Anti-Bd bacteria are diverse in central Appalachian Plethodon salamanders, and their distribution varied geographically. The antifungal bacteria we identified may play a protective role for these salamanders.

Our work is motivated by the impacts of the emerging infectious disease chytridiomycosis, a disease of amphibians that associated with declines of many species worldwide. Using this host-pathogen system as a general example, we first illustrate how misleading inferences can result from failing to incorporate pathogen dynamics into the modeling process, especially when the pathogen is difficult or impossible to survey in the absence of a host species. We found that traditional modeling techniques can underestimate the effect of a pathogen on host species occurrence and dynamics when the pathogen can only be detected in the host, and pathogen information is treated as a covariate. We propose a dynamic multistate modeling approach that is flexible enough to account for the detection structures that may be present in complex multistate systems, especially when the sampling design is limited by a species’ natural history or sampling technology.

Information on interactions between pesticide exposure and disease prevalence in amphibian populations is limited, especially from field data.Exposure to certain herbicides and insecticides has the potential to decrease immune response in frogs which can potentially lead to an increased abundance of Batrachochytrium dendrobatidis (Bd) zoospores on individuals and in the https://wetlands.In contrast, exposure to certain fungicides can decrease Bd abundance on frog skin. We examined the relationships between the abundance of Bd on the skin of individual Boreal Chorus Frogs(Pseudacris maculata) and the concentrations of pesticides in the water and in frog tissue at six agriculturally dominated wetlands in Iowa, USA

Many coastal dune ecosystems have been degraded by non-native dune vegetation, but these systems might still provide valuable habitat for some taxa, including amphibians. Because restoration of degraded dune systems is occurring and likely to continue, we examined the occurrence of amphibians in drainages associated with a coastal dune ecosystem degraded by invasive plants (European Beachgrass, Ammophila arenaria, and Iceplant, Carpobrotus edulis). We found that occupancy of 3 amphibian species (California Red-legged Frog, Rana draytonii; Sierran Treefrog, Hyliola sierra; and Rough-skinned Newt, Taricha granulosa) among 21 coastal dune drainages was high, with most coastal dune drainages occupied by all 3 species. Furthermore, reproduction of Sierran Treefrogs and California Red-legged Frogs was estimated to occur in approximately 1/2 and 1/3; of the drainages, respectively. The probability of occurrence of Rough-skinned Newts and pre-metamorphic life stages of both anurans decreased during the study, perhaps because of ongoing drought in California or precipitation-induced changes in phenology during the final year of the study. Maintaining structural cover and moist features during dune restoration will likely benefit native amphibian populations inhabiting coastal dune ecosystems.

Understanding the additive or interactive threats of habitat transformation and invasive species is critical for conservation, especially where climate change is expected to increase the severity or frequency of drought. In the arid southwestern USA, this combination of stressors has caused widespread declines of native aquatic and semi-aquatic species. Achieving resilience to drought and other effects of climate change may depend upon continued management, so understanding the combined effects of stressors is important. We used Bayesian hierarchical models fitted with 10-yrs of pond-based monitoring surveys for the federally-endangered Sonoran Tiger Salamander (Ambystoma mavortium stebbinsi) and invasive predators (fishes and American Bullfrogs, Lithobates catesbeianus) that threaten native species. We estimated trends in occupancy of salamanders and invasive predators while accounting for hydrological dynamics of ponds, then used a two-species interaction model to directly estimate how invasive predators affected salamander occupancy. We also tested a conceptual model that predicted that drought, by limiting the distribution of invasive predators, could ultimately benefit native species. Even though occupancy of invasive predators was stationary and their presence in a pond reduced the probability of salamander presence by 23%, occupancy of Sonoran Tiger Salamanders increased, annually, by 2.2%. Occupancy of salamanders and invasive predators both declined dramatically following the 5th consecutive year of drought. Salamander occupancy recovered quickly after return to non-drought conditions, while occupancy of invasive predators remained suppressed. Models that incorporated three time-lagged periods (1 to 4 yrs) of local moisture conditions confirmed that salamanders and invasive predators responded differently to drought, reflecting how life-history strategies shape responses to disturbances. The positive 10-yr trend in salamander occupancy and their rapid recovery after drought provided partial support for the hypothesis of drought-mediated coexistence with invasive predators. These results also suggest management opportunities for conservation of the Sonoran Tiger Salamander and other imperiled organisms in human-transformed landscapes.

California Red-legged Frogs (Rana draytonii) are typically regarded as inhabitants of permanent ponds, marshes, and slow-moving streams, but their ecology in other habitats, such as drainages among coastal dunes, remains obscure. Because coastal dune ecosystems have been degraded by development, off-highway vehicle use, stabilization, and invasive species, these unique ecosystems are the focus of restoration efforts. To better understand the ecology of California Red-legged Frogs in coastal dune ecosystems and to avoid and minimize potential negative effects of dune restoration activities on these rare frogs, we studied their spatial ecology, habitat selection, and survival in coastal dune drainages at Point Reyes National Seashore, California, USA. All 22 radio-marked frogs remained in their home drainages throughout the spring and summer of 2015 and, with some notable exceptions, most remained close to water. Local convex hull home ranges of four out of five California Red-legged Frogs with > 20 observations in dunes were < 1,600 m2. At the population level, frogs were 1.7 (1.2-4.4) times more likely to select sites 1 m closer to water, and were 83 (2.0-17,000) times more likely to select sites with 10% greater percent cover of logs that served as refuges from environmental extremes and predators. On average, California Red-legged Frogs avoided the invasive plants Iceplant (Carpobrotus edulis) and European Beachgrass (Ammophila arenaria). Frogs were https://0.68 (0.32-0.89) and https://0.55 (0.24-0.75) times as likely to select areas that had 10% greater cover of these plants, respectively. Assuming constant risk of mortality, California Red-legged Frogs had an annual survival rate of https://0.70 (range, 0.27-0.96) in coastal dune drainages. This relatively high survival rate suggests that coastal dune drainages provide a locally important habitat for California Red-legged Frogs. Restoration practices that maintain wetted drainages with logjams are likely to benefit California Red-legged Frogs.

At least one-third of all amphibian species face the threat of extinction, and current amphibian extinction rates are four orders of magnitude greater than background rates. Preventing extirpation often requires both ex situ (i.e., conservation breeding programs) and in situ strategies (i.e., protecting natural habitats). Flatwoods salamanders (Ambystoma bishopi and A. cingulatum) are protected under the U.S. Endangered Species Act. The two species have decreased from 476 historical locations to 63 recently extant locations (86.8% loss). Recovery efforts are needed to increase populations and prevent extinction, but uncertainty regarding optimal actions in both ex situ and in situ realms hinders recovery planning. We used structured decision making (SDM) to address key uncertainties regarding captive breeding and habitat restoration, and developed short-, medium-, and long-term goals to achieve recovery objectives. In promoting a transparent, logical approach, SDM has proven vital for developing recovery plans for flatwoods salamanders. The SDM approach has clear advantages over other previous approaches to recovery efforts, and should be considered for other complex decisions regarding endangered species.

We introduce a mathematical model for studying the population dynamics under drought of the California newt (Taricha torosa), a species of special concern in the state of California. Since 2012, California has experienced a record-setting drought, and multiple studies predict drought conditions currently underway will persist and even increase in severity. Recent declines and local extinctions of California newt populations in Santa Monica Mountain streams motivate our study of the impact of drought on newt population sizes. Although newts are terrestrial salamanders, they migrate to streams each spring to breed and lay eggs. Since egg and larval stages occur in water, a precipitation deficit due to drought conditions reduces the space for newt egg-laying and the necessary habitat for larval development. To mathematically forecast newt population dynamics, we develop a nonlinear system of discrete equations that includes demographic parameters such as survival rates for newt life stages and egg production, which depend on habitat availability and rainfall. We estimate these demographic parameters using 15 years of stream survey data collected from Cold Creek in Los Angeles County, California, and our model captures the observed decline of the parameterized Cold Creek newt population. Based upon data analysis, we predict how the number of available newt egg-laying sites varies with annual precipitation. Our model allows us to make predictions about how the length and severity of drought can affect the likelihood of persistence and the time to critical endangerment of a local newt population. We predict that sustained severe drought will critically endanger the newt population but that the newt population can rebound if a drought is sufficiently short.

Small, seasonal pools and temporary ponds (<4.0ha) are the most numerous and biologically diverse wetlands in many natural landscapes. Thus, accurate determination of their numbers and spatial characteristics is beneficial for conservation and management of biodiversity associated with these freshwater systems. We examined the utility of a topographic position index (TPI) landscape classification to identify and classify depressional wetlands. We also assessed relationships between topographic characteristics and ponded duration of known wetlands to allow hydrological characteristics to be extended to non-monitored locations. Our results indicate that this approach was successful at identifying wetlands, but did have higher errors of commission (10%) than omission (5%). Additionally, the TPI procedure provided a reasonable means to correlate general ponded duration characteristics (long/short) with wetland topography. Although results varied by hydrologic class, permanent/long ponded duration wetlands were more often classified correctly (80%) than were short ponded duration wetlands (67%). However, classification results were improved to 100% and 75% for permanent/long and short ponded duration wetlands, respectively, by removing wetlands occurring on an abrupt marine terrace that erroneously inflated pond topographic characteristics. Our study presents an approach for evaluating wetland suitability for species or guilds that are associated with key habitat characteristics, such as hydroperiod.

The rapid emergence and reemergence of zoonotic diseases requires the ability to rapidly evaluate and implement optimal management decisions. Actions to control or mitigate the effects of emerging pathogens are commonly delayed because of uncertainty in the estimates and the predicted outcomes of the control tactics. The development of models that describe the best known information regarding the disease system at the early stages of disease emergence is an essential step for optimal decision-making. Models can predict the potential effects of the pathogen, provide guidance for assessing the likelihood of success of different proposed management actions, quantify the uncertainty surrounding the choice of the optimal decision, and highlight critical areas for immediate research. We demonstrate how to develop models that can be used as a part of a decision-making framework to determine the likelihood of success of different management actions given current knowledge.

Globally, Arctic and Subarctic regions have experienced the greatest temperature increases during the last 30 years. These extreme changes have amplified threats to the freshwater ecosystems that dominate the landscape in many areas by altering water budgets. Several studies in temperate environments have examined the adaptive capacity of organisms to enhance our understanding of the potential repercussions of warming and associated accelerated drying for freshwater ecosystems. However, few experiments have examined these impacts in Arctic or Subarctic freshwater ecosystems, where the climate is changing most rapidly. To evaluate the capacity of a widespread ectotherm to anticipated environmental changes, we conducted a mesocosm experiment with wood frogs (Rana sylvatica) in the Canadian Subarctic. Three warming treatments were fully crossed with three drying treatments to simulate a range of predicted changes in wetland environments. We predicted wetland warming and drying would act synergistically, with water temperature partially compensating for some of the negative effects of accelerated drying. Across all drying regimes, a 1°C increase in water temperature increased the odds of survival by https://1.79, and tadpoles in 52-day and 64-day hydroperiod mesocosms were 4.1–4.3 times more likely to survive to metamorphosis than tadpoles in 45-day mesocosms. For individuals who survived to metamorphosis, there was only a weak negative effect of temperature on size. As expected, increased temperatures accelerated tadpole growth through day 30 of the experiment. Our results reveal that one of the dominant herbivores in Subarctic wetlands, wood frog tadpoles, are capable of increasing their developmental rates in response to increased temperature and accelerated drying, but only in an additive manner. The strong negative effects of drying on survival, combined with lack of compensation between these two environmental drivers, suggest changes in the aquatic environment that are expected in this ecosystem will reduce mean fitness of populations across the landscape.

Despite calls for improving responses to emerging infectious diseases of wildlife, management is seldom considered until a disease has been detected in affected populations. Reactive approaches may limit the potential for control and increase total response costs. An alternative, proactive, management framework can identify immediate actions that reduce future impacts even before a disease is detected, as well as prepare actions conditional on disease emergence. We identify four main challenges to developing proactive management strategies for the newly discovered salamander pathogen, Batrachochytrium salamandrivorans (Bsal). Given that deep uncertainty is a hallmark of wildlife disease management and decisions are often complicated by multiple competing objectives, we advocate using decision analysis to create and evaluate trade-offs among proactive (pre-emergence) and reactive (post-emergence) management. Using principles from decision analysis, natural resources agencies and policy-makers can utilize a variety of tools to improve the development of management strategies for emerging infectious diseases.

Multiple pathways exist for species to respond to changing climates. However, responses of dispersal-limited species will be more strongly tied to ability to adapt within existing populations as rates of environmental change will likely exceed movement rates. Here, we assess adaptive capacity in Plethodon cinereus, a dispersal-limited woodland salamander. We quantify plasticity in behavior and variation in demography to observed variation in environmental variables over a 5 year period. We found strong evidence that temperature and rainfall influence P. cinereus surface presence, indicating changes in climate are likely to affect seasonal activity patterns. We also found that warmer summer temperatures reduced individual growth rates into the autumn, which is likely to have negative demographic consequences. Reduced growth rates may delay reproductive maturity and lead to reductions in size-specific fecundity, potentially reducing population level persistence. To better understand within-population variability in responses, we examined differences between two common color morphs. Previous evidence suggests that the color polymorphism may be linked to physiological differences in heat and moisture tolerance. We found only moderate support for morph-specific differences for the relationship between individual growth and temperature. Measuring environmental sensitivity to climatic variability is the first step in predicting species’ responses to climate change. Our results suggest phenological shifts and changes in growth rates are likely responses under scenarios where further warming occurs, and we discuss possible adaptive strategies for resulting selective pressures. &amp;#8195;

We appreciate the review and comments from Andreone (2016) regarding our proposed alternative strategy for addressing the amphibian crisis. Andreone recognizes the utility of an incident command system approach but doubts the feasibility of implementation at an international level. We stated in our original article, however, that ‘The feasibility of our suggestion is debatable, but our point is that radically different approaches are necessary to effectively manage the largest extinction event in modern history’

Amphibians are excellent sentinels for contaminant exposure in prairie wetlands. Development of passive sampling devices (PSD) has greatly improved in recent years, and they present an innovative sampling technology that can potentially yield individual-specific, quantifiable data on chemical exposure. In this study, PSDs were attached to the ventral skin of 20 northern leopard frogs (Lithobates pipiens) with polypropylene sutures after radio transmitters had been surgically inserted into the coleomic cavity. After a recovery period frogs were released into the wild and located daily using radio telemetry to assess how long PSDs would remain attached in the frogs’ natural habitat. After one week, PSDs remained on 18 of the original 20 frogs. At 2 weeks 16 frogs were recovered and no PSDs remained attached. Although valuable data can be obtained over a short time period, more research will be necessary to demonstrate effectiveness of externally attaching silicone PSDs to northern leopard frogs for time periods longer than 1-2 weeks.

We characterized the species richness, diversity and distribution of amphibians and reptiles inhabiting El Monte Valley, a heavily disturbed, alluvium-filled basin within the lower San Diego River in Lakeside, California. This rare habitat type in coastal southern California is designated as a critical sand resource by the State of California (California Geological Survey) and is currently under consideration for a large-scale sand mining operation with subsequent habitat restoration. We conducted field surveys in the valley from June 2015-May 2016 and placed emphasis on detecting the coastal form of the California glossy snake (Arizona elegans occidentalis) given its status as a species of special concern by the California Department of Fish and Wildlife, its preference for sandy/gravelly habitats, and its documented historical presence in the valley. Survey techniques included drift fence lines with funnel traps, cover board arrays, walking transects, and road driving. We recorded 1,208 total captures in five sampling sections extending across the valley floor, revealing high species richness and diversity but with marked unevenness in species’ abundances. Two species are covered in the San Diego Multiple Species Conservation Program and 10 are listed as species of special concern in California. Snakes were the most species rich taxonomic group (13 species representing 11 genera), followed by lizards (11 species representing nine genera). Next to the southern Pacific rattlesnake (Crotalus oreganus helleri), A. e. occidentalis was the second most frequently detected snake species (n = 23 captures). Amphibian species richness was limited to two species of toad and one frog. Despite the relatively limited 12-month sampling period, a longstanding drought, and severe habitat disturbance, our study demonstrates that El Monte Valley harbors a rich herpetofauna that includes a number of sensitive species, including the largest known concentration of A. e. occidentalis in coastal San Diego County.