Soil seed banks help maintain species diversity through temporal storage effects and function as germination pools that can optimize fitness across varying environmental conditions. These characteristics promote the persistence of native plant communities, yet disturbances such as fire and associated invasions by non-native species can disrupt these reserves, fundamentally altering successional trajectories. This may be particularly true in deserts, where native plant communities are less adapted to fire. While studies of fire effects on desert plant communities are not uncommon, information regarding the short- and long-term effects of fire on seed banks is less available. To better understand the influence of fire and invasive species on desert seed banks, we investigated soil seed bank biodiversity from 30 wildfires that burned between 1972 and 2010 across the Mojave Desert ecoregion of North America. We assessed how characteristics of fire regimes (frequency, time since fire, and burn severity) interacted with climate and invasive plants on measures of α-, β-, and γ-diversities. Because β-diversity is a direct measure of community variability and reveals important information about biodiversity loss, we further examined the nestedness and turnover components of β-diversity. Mean α- and γ-diversities were generally higher for burned locations than in unburned reference sites, however individual fire variables had little influence on patterns of seed bank diversity. Burned area seed banks tended to be dominated by non-native invasive species, primarily two grasses, (Bromus rubens, Bromus tectorum), as well as an invasive forb (Erodium cicutarium). The most striking pattern we observed was a collective sharp decline in α-, β-, and γ-diversities with increased invasive species dominance, indicating the homogenization of seed bank communities with the colonization of invasive species after fire. Evidence of homogenization was further supported by reduced turnover and increased nestedness in burn areas compared to reference areas indicating potential biodiversity loss. Our findings highlight how biological processes such as plant invasions can combine with disturbance from fire to alter patterns of seed bank composition and diversity in desert ecosystems.

Understanding which detection methods to use is important to endangered species research and management and often requires a balance between costs and benefits. We investigated the efficiency and costs of camera-trapping, live-trapping, and sign surveys (vole feces, clippings, runways) as methods for detection of the endangered Amargosa voles (Microtus californicus scirpensis). Although each method documented the presence of voles, baited camera-trapping was the most sensitive method for detecting voles and provided insights into vole activity and behavior. Although live-trapping had 100% specificity and provided data and access to biological samples that could not be collected through other methods, it had reduced sensitivity (85.2%) compared to camera-traps and incurred potential risk to individual voles. Sign surveys were the least sensitive method (78.9%) and suffered in that some types of sign could not accurately be attributed to species. Additionally, sign surveys could not inform about how recently vole activity had occurred because Amargosa vole feces can persist in the environment for long periods of time and degrade 4.7 times faster in wetter marshes than dryer sites. Sign and fecal surveys are best suited for occupancy and distribution surveys at a coarse time scale (≥1-year intervals) but are likely to have low predictive values in years when vole abundance is low. Cost comparisons indicate the highest per session cost and moderate habitat impact for camera trapping, highest overall cost and highest impact to habitat for live-trapping, and lowest expense and habitat impact for sign surveys but relatively low yield in data quality.

Native bunchgrass communities dominated by Stipa pulchra are widely distributed in California but share dominance with non‐native annual grasses. Restoration of these grasslands focuses on altering the balance of native to non‐native grasses to favor the former. This study investigated the impact of burning on vegetation recovery. In the first postfire year burning showed a 70% reduction in cover of non‐native annual grasses ( Bromus diandrus exhibited the greatest reduction) and minimal impact on S. pulchra recovery. In the following 3 years, S. pulchra recovered to levels comparable to controls, whereas the annual grasses remained below control levels until the fifth year. Also, in response to reduced annual grass cover on burned sites several species of non‐native Erodium increased from 10 to 30% relative cover, however, the low growth form of these forbs presented a less competitive threat to bunchgrasses than the non‐native annual grasses, and by the third postfire year returned to near control levels. The rare native geophyte Brodiaea kinkiensis was present throughout these grasslands and was not inhibited by burning treatments. To document the reliability of these patterns a second prescription burn was conducted on these sites 5 years after the first burn and vegetation recovery followed for the subsequent 4 years. Patterns observed after the first burn were duplicated following the second burn. The cover of S . pulchra varied in response to precipitation, with the 95% credible intervals of precipitation parameters overlapping zero, however, the cover of non‐native grasses varied greatly with precipitation and had similar trajectories in unburned and burned plots.

Species with different ecological niches will likely exhibit distinct responses to a changing environment. Differences in the magnitude of niche specialization may also indicate which species may be more vulnerable to environmental change, as many life-history characteristics are known to affect climate change vulnerability. We characterized the niche space of three sympatric high-elevation ground-dwelling squirrels, yellow-bellied marmot (Marmota flaviventer), Belding's ground squirrel (Urocitellus beldingi), and golden-mantled ground squirrel (Callospermophilus lateralis), in the alpine and upper subalpine regions of the Sierra Nevada in California. We used 5879 observations of individual squirrels, collected from 4 years (2009-2012) of transect survey data, to quantify which ecogeographical variable types (climate, topography, or landcover) were most important in defining the niche of each species. We conducted Ecological Niche Factor Analysis to quantify the niche and generate indices of "marginality" (magnitude of selection) and "specialization" (narrowness of niche space). All three species demonstrated differential use of niche space when compared to the available niche space. Moreover, the relative importance of the variables shaping the niche differed among these species. For example, the presence of meadows was important in defining the niche for U. beldingi and M. flaviventer, but the presence of conifers was important to C. lateralis. Precipitation was important in defining the niche for all three species, positively so for U. beldingi, and negatively for the other two species. The niche breadth of these three species was also positively associated with geographic range size. Mammals in high-elevation mountain systems often are perceived as vulnerable to climate shifts, but our results underscore the importance of also including non-climate-based factors in defining the niche. The overall magnitude of niche selection for all three species was driven by a combination of topographic, climatic, and landcover factors; thus, efforts to forecast areas where these species can persist in the future need to evaluate from more than just a climatic perspective.

Few studies have evaluated the optimal sampling design for tracking small mammal population trends, especially for rare or difficult to detect species. Spatially explicit capture-recapture (SECR) models present an advancement over non-spatial models by accounting for individual movement when estimating density. The salt marsh harvest mouse (SMHM; Reithrodontomys raviventris) is a federal and California state listed endangered species endemic to the San Francisco Bay-Delta estuary, California, USA; where a population in a subembayment has been continually monitored over an 18-year period using mark-recapture methods. We analyzed capture data within a SECR modeling framework that allowed us to account for differences in detection and movement between sexes. We compared the full dataset to subsampling scenarios to evaluate how the grid size (area) of the trap design, trap density (spacing), and number of consecutive trapping occasions (duration) influenced density estimates. To validate the subsampling methods, we ran Monte Carlo simulations based on the true parameter estimates for each specific year. We found that reducing the area of the trapping design by more than 36% resulted in the inability of the SECR model to replicate density estimates within the SE of the original density estimates. However, when trapping occasions were reduced from 4 to 3-nights the density estimates were indistinguishable from the full dataset. Furthermore, reducing trap density by 50% also resulted in density estimates comparable to the full dataset and was a substantially better model than reducing the trap area by 50%. Overall, our results indicated that moderate reductions in the number of trapping occasions or trap density could yield similar density estimates when using a SECR approach. This approach allows the optimization of field trapping efforts and designs by reducing field efforts while maintaining the same population estimate compared to the full dataset. Using a SECR approach may help other wildlife programs identify sampling efficiencies without sacrificing data integrity for long term monitoring of population densities.

Long-term environmental management to prevent waterfowl population declines is informed by ecology, movement behavior and habitat use patterns. Extrinsic factors, such as human-induced disturbance, can cause behavioral changes which may influence movement and resource needs, driving variation that affects management efficacy. To better understand the relationship between human-based disturbance and animal movement and habitat use, and their potential effects on management, we GPS tracked 15 dabbling ducks in California over ~4-weeks before, during and after the start of a recreational hunting season in October/November 2018. We recorded locations at 2-min intervals across three separate 24-h tracking phases: Phase 1) two weeks before the start of the hunting season (control (undisturbed) movement); Phase 2) the hunting season opening weekend; and Phase 3) a hunting weekend two weeks after opening weekend. We used GLMM models to analyze variation in movement and habitat use under hunting pressure compared with ‘normal’ observed patterns prior to commencement of hunting. We also compared responses to differing levels of disturbance related to the time of day (high - shooting/~daytime); moderate - non-lethal (~crepuscular); and low - night). During opening weekend flight (% time and distance) more than doubled during moderate and low disturbance and increased by ~50% during high disturbance compared with the pre-season weekend. Sanctuary use tripled during moderate and low disturbance and increased ~50% during high disturbance. Two weeks later flight decreased in all disturbance levels but was only less than the pre-season levels during high disturbance. In contrast, sanctuary use only decreased at night, although not to pre-season levels, while daytime doubled from ~45% to >80%. Birds adjust rapidly to disturbance and our results have implications for energetics models that estimate population food requirements. Management would benefit from reassessing the juxtaposition of essential sanctuary and feeding habitats to optimize wetland management for waterfowl.

ABSTRACT Respiratory disease is a key factor affecting the conservation and recovery of bighorn sheep ( Ovis canadensis ) populations. Innovative, minimally invasive tools such as gene transcription–based diagnostics have the potential to improve our understanding of the broad range of factors that can affect the health of wild sheep. Evaluation of transcript levels for genes representative of multiple internal systems enables measurement of physiological responses of individuals as well as populations to environmental stressors such as pathogens, nutritional deficiency, or contaminants. We developed real‐time polymerase chain reaction assays for 14 genes of interest representing systems including inflammation, cell signaling, detoxification, antiviral, antibacterial, or general stress. Initial results from desert bighorn sheep ( O. c. nelsoni ) sampled from the River, Muddy, and Bare mountains as well as from the Pintwater Range, in southern Nevada, USA, indicated unique transcript profiles associated with each population. This initial study provides the framework from which controlled variable or longitudinal studies can be made, thus augmenting the potential to inform management actions in the future. © 2020 The Wildlife Society.

Abstract We assessed the impacts of co‐occurring invasive plant species on fire regimes and postfire native communities in the Mojave Desert, western USA. We analyzed the distribution and co‐occurrence patterns of three invasive annual grasses (Bromus rubens, Bromus tectorum, and Schismus spp.) known to alter fuel conditions and community structure, and an invasive forb (Erodium cicutarium) which dominates postfire sites. We developed species distribution models (SDMs) for each of the four taxa and analyzed field plot data to assess the relationship between invasives and fire frequency, years postfire, and the impacts on postfire native herbaceous diversity. Most of the Mojave Desert is highly suitable for at least one of the four invasive species, and 76% of the ecoregion is predicted to have high or very high suitability for the joint occurrence of B. rubens and B. tectorum and 42% high or very high suitability for the joint occurrence of the two Bromus species and E. cicutarium. Analysis of cover from plot data indicated two or more of the species occurred in 77% of the plots, with their cover doubling with each additional species. We found invasive cover in burned plots increased for the first 20 years postfire and recorded two to five times more cover in burned than unburned plots. Analysis also indicated that native species diversity and evenness as negatively associated with higher levels of relative cover of the four invasive taxa. Our findings revealed overlapping distributions of the four invasives; a strong relationship between the invasives and fire frequency; and significant negative impacts of invasives on native herbaceous diversity in the Mojave. This suggests predicting the distributions of co‐occurring invasive species, especially transformer species, will provide a better understanding of where native‐dominated communities are most vulnerable to transformations following fire or other disturbances.

Yosemite Field Station, USGS Western Ecological Research Center, 5083 Foresta Road, Box 700, El Portal, CA 95318 Sequoia and Kings Canyon Field Station, USGS Western Ecological Research Center, 47050 Generals Highway #4, Three Rivers, CA 93271 Las Vegas Field Station, USGS Western Ecological Research Center, 160 N. Stephanie, Henderson, NV 89074 Email: jan_van_wagtendonk@usgs.gov jon_keeley@usgs.gov matt_brooks@usgs.gov rklinger@usgs.gov

Pack stock (horses, mules, burros, llamas, and goats) are frequently assumed to have negative effects on public lands, but there is a general lack of data to be able to quantify the degree to which this is actually the case. Sequoia and Kings Canyon National Parks have received complaints that pack stock may affect Sierra Nevada bighorn sheep (Ovis canadensis sierrae; SNBS), a federally endangered subspecies that occurs in largely disjunct herds in the Sierra Nevada Range of California. The potential effects are thought to be displacement of SNBS from meadows on their summer range (altered habitat use) or, more indirectly, through changes in SNBS habitat or forage quality. Our goals were to conduct an association analysis to quantify the degree of potential spatial overlap in meadow use between SNBS and pack stock and to compare differences in vegetation community composition, structure, and diversity among meadows with different levels of use by bighorn sheep and pack stock. For the association analysis, we used two approaches: (1) we quantified the proportion of meadows that were within the herd home ranges of bighorn sheep and were potentially open to pack stock, and, (2) we used Monte Carlo simulations and use-availability analyses to compare the proportion of meadows used by bighorn sheep relative to the proportional occurrence or area of meadows available to bighorn sheep that were used by pack stock. To evaluate potential effects of pack stock on meadow plant communities and SNBS forage, we sampled vegetation in 2011 and 2012 at 100 plots to generate data that allowed us to compare: 1. Herbaceous plant species composition, structure, and diversity in plots with different combinations of use by pack stock and SNBS; 2. Cover of bare ground in plots with different combinations of use by pack stock and SNBS; and, 3. Total cover, diversity, and species composition of SNBS forage species in plots with different combinations of use by pack stock and SNBS. The association analyses indicated the potential for overlap between pack stock and SNBS was minimal; only 1 percent of the potential meadow area in the SNBS herd home ranges overlapped that of pack stock meadows. There were no systematic differences in overall vegetation structure or composition, or in diversity, cover, or composition of forage species, that indicated pack stock were altering SNBS habitat or affecting their nutrition. Variation in plant species composition was influenced primarily by random differences among meadows and environmental gradients, and there was little evidence that pack stock use contributed in meaningful ways to this variation. The few differences among meadows with different levels of use by bighorn sheep and pack stock either were minor or were not in a direction consistent with negative effects of pack stock on SNBS. We conclude that the current plan for managing pack stock grazing has been successful in minimizing significant negative effects on Sierra Nevada bighorn sheep at Sequoia and Kings Canyon National Parks.

We assessed the habitat use patterns of the Amargosa vole Microtus californicus scirpensis, an endangered rodent endemic to wetland vegetation along a 3.5 km stretch of the Amargosa River in the Mojave Desert, USA. Our goals were to: (1) quantify the vole’s abundance, occupancy rates and habitat selection patterns along gradients of vegetation cover and spatial scale; (2) identify the processes that likely had the greatest influence on its habitat selection patterns. We trapped voles monthly in six 1 ha grids from January to May 2012 and measured habitat structure at subgrid (225m2) and trap (1m2) scales in winter and spring seasons. Regardless of scale, analyses of density, occupancy and vegetation structure consistently indicated that voles occurred in patches of bulrush (Schoenoplectus americanus; Cyperaceae) where cover >50%. The majority of evidence indicates the vole’s habitat selectivity is likely driven by bulrush providing protection from intense predation. However, a combination of selective habitat use and limited movement resulted in a high proportion of apparently suitable bulrush patches being unoccupied. This suggests the Amargosa vole’s habitat selection behavior confers individual benefits but may not allow the overall population to persist in a changing environment.

We surveyed pathogens and ectoparasites among federally endangered Amargosa voles (Microtus californicus scirpensis) and sympatric rodents in Tecopa Hot Springs, Inyo County, California, December 2011 November 2012. We aimed to assess disease and detect possible spillover from or connectivity with other hosts within and outside the Amargosa ecosystem. We assessed 71 individual voles and 38 individual sympatric rodents for current infection with seven vector-borne zoonotic pathogens and past exposure to five pathogens. Thirteen percent of Amargosa voles were PCR positive for Toxoplasma gondii, a zoonotic protozoan that may alter host behavior or cause mortality. Additionally, we found antibodies against Borrelia burgdorferi sensu lato (SL) spp. in 21% of voles, against Anaplasma phagocytophilum in 2.6%, Rickettsia spp. in 13%, relapsing fever Borrelia (3.9%), and T. gondii (7.9%). Sympatric rodents also had active infections with Borrelia SL spp. (15%). Of the ectoparasites collected, the tick Ixodes minor is of particular interest because the study area is well outside of the species' reported range and because I. minor ticks infest migratory birds as well as rodents, showing a potential mechanism for pathogens to be imported from outside the Amargosa ecosystem.

ABSTRACTClimate models may be limited in their inferential use if they cannot be locally validated or do not account for spatial uncertainty. Much of the focus has gone into determining which interpolation method is best suited for creating gridded climate surfaces, which often a covariate such as elevation (Digital Elevation Model, DEM) is used to improve the interpolation accuracy. One key area where little research has addressed is in determining which covariate best improves the accuracy in the interpolation. In this study, a comprehensive evaluation was carried out in determining which covariates were most suitable for interpolating climatic variables (e.g. precipitation, mean temperature, minimum temperature, and maximum temperature). We compiled data for each climate variable from 1950 to 1999 from approximately 500 weather stations across the Western United States (32° to 49° latitude and −124.7° to −112.9° longitude). In addition, we examined the uncertainty of the interpolated climate surface. Specifically, Thin Plate Spline (TPS) was used as the interpolation method since it is one of the most popular interpolation techniques to generate climate surfaces. We considered several covariates, including DEM, slope, distance to coast (Euclidean distance), aspect, solar potential, radar, and two Normalized Difference Vegetation Index (NDVI) products derived from Advanced Very High Resolution Radiometer (AVHRR) and Moderate Resolution Imaging Spectroradiometer (MODIS). A tenfold cross‐validation was applied to determine the uncertainty of the interpolation based on each covariate. In general, the leading covariate for precipitation was radar, while DEM was the leading covariate for maximum, mean, and minimum temperatures. A comparison to other products such as PRISM and WorldClim showed strong agreement across large geographic areas but climate surfaces generated in this study (ClimSurf) had greater variability at high elevation regions, such as in the Sierra Nevada Mountains.

Summary1. Early detection of biological invasions can reduce the costs of control and increase its efficacy. Although much research focuses on the appearance or establishment of new invaders, few studies target the detection of spread from established populations. Managers of natural areas have limited resources; therefore, there is need for efficient methods of quantifying the spread of likely invaders in local and regional areas.2. We employed homeowner surveys, seedling outplanting, directed seedling searches and randomly located plots to determine whether two introduced species of Oleaceae, Ligustrum lucidum and Olea europaea, demonstrate invasive levels of recruitment in California’s Sacramento Valley. These methods are examples of low‐cost approaches to examining the regional spread of non‐native woody species with differing habitat requirements.3. Homeowner surveys indicated abundant recruitment of L. lucidum in irrigated areas, with no evident decline by distance from horticultural source trees. Ligustrum lucidum seedlings established readily when planted immediately adjacent to streams, but were unable to survive summer drought when located further from the water.4. Recruitment of O. europaea at distances >100 m from source trees was uncommon. Spread of O. europaea is rare relative to the number of reproductive individuals that have been planted in the study area; where it occurs, seedling recruitment appears largely a function of propagule pressure.5. Synthesis and applications. Low‐cost and rapid methods are essential for successful long‐term monitoring of spread from populations of introduced, woody plant species. We employed high‐efficiency methods of spread detection for two species of Oleaceae with invasive potential and existing populations in the study region. We detected no barriers to spread by L. lucidum in areas with elevated soil moisture and consider the species a likely riparian invader. By comparison, O. europaea shows little tendency to spread. We suggest that managers combine low‐input methods and direct surveys towards habitats of conservation concern and routes of likely seed dispersal.

Invasions by multiple nonnative species into wildland areas require that decisions be made on which species and sites to target for early detection monitoring efforts and ultimately management actions. Efficient allocation of resources to detect invasions from outside of a management unit, and to monitor their spread within a management unit, leaves more resources available for control efforts and other management priorities. In this chapter, we describe three types of monitoring plans that are possible given three typical scenarios of data availability within or adjacent to the management unit: (1) there are no data on invasive species, (2) there are species lists of invasives, and (3) there are georeferenced abundance data for invasive species. In the absence of invasive species data, monitoring must be guided based on the general principals of invasion biology related to propagule pressure and plant resource availability. With invasive species lists, prioritization processes can be applied to narrow the monitoring area. It is also helpful to develop separate prioritized lists for species that are currently colonizing, established but not spreading, and those that have begun to spread within a management unit, because management strategies differ for species at different phases of the invasion process. With georeferenced abundance data, predictive models can be developed for high priority species to further increase the efficiency of early detection monitoring. For the majority of invasive species management programs, we recommend a design based on integrating prioritization and predictive modeling into an optimized monitoring plan, but only if the required species information and resources to process them are available and the decision is based on well-defined management goals. Although the up-front costs of this approach appear to be high, its long-term benefits can ultimately make it more cost-effective than less systematic approaches that typify most early detection programs.

This chapter explores the relationship between fire and invasive species in California from three different perspectives: the general interrelationships between fire and invasive plants, specific examples from within or near California, and the use of fire as a management tool to control non-native species. It also describes what an invasive species is and determines the species that are thought or known to present the greatest threats to conservation in California. A particularly important aspect in using fire to manage invasive species is that environmental variability and factors interacting with fire can have more important effects on both non-native and native species than fire alone. Management programs and ecological studies must accept that those invasive species now established as a dominant component of an ecosystem will be difficult to control, or even less likely, to eradicate.