Geomicrobiological Changes in Two Ephemeral Desert Playa Lakes in the Western United States

The geochemistry and microbiology of two ephemeral playa lakes in the Western United States, Surprise Valley Alkali Lake (SVAL) and Eldorado Playa (EP), were examined over one wetting cycle, revealing dramatic temporal changes in suspended mineralogy, aqueous chemistry, and bacterial populations. In SVAL the predominant suspended mineral changed from smectite to vermiculite and clinoptilolite, which led to a depletion of soluble Mg²⁺. Nitrate became depleted in both playas as a result of biological nitrogen demand imparted by unusually dense microbial communities reaching ～1 × 10⁸ cultivable heterotrophs per ml of water. One hundred eighty eight bacterial isolates were obtained, representing sixty phylotypes and four phyla: Actinobacteria, Bacteroidetes, Proteobacteria, and Firmicutes. Phylogenetic analyses suggested that the microbial communities reflected different phases of succession, with SVAL changing from a diverse community with abundant Yonghaparkia to a less diverse late summer community with abundant Bacteroidetes and Proteobacteria such as Loktanella, Rhodobaca, Saccharospirillum, Flexibacter, and phylogenetically novel members of the Flexibacteriaceae. In EP, a diverse assemblage of bacteria often associated with soils was replaced very quickly by a much less even community dominated by Yonghaparkia, Sandarakinorhabdus, and relatives of Belliella baltica. Strikingly, the early summer microbial community from SVAL was not significantly different from the EP community that developed within one week of flooding, even though these playas are almost 1000 km apart, whereas sympatric communities in different phases of succession were different. To our knowledge, this is one of the first geomicrobiological studies of a recharge playa, the dominant playa type worldwide.     

Understory responses to restoration in aspen‐conifer forests around the Lake Tahoe Basin: residual stand attributes predict recovery

The removal of conifers from aspen (Populus tremuloides) stands is being undertaken throughout the western United States to restore aspen for local‐ and landscape‐level biodiversity. Current practices include mechanically removing conifers or hand thinning, piling, and burning cut conifers in and adjacent to aspen‐conifer stands. To evaluate the effectiveness of restoration treatments, we examined tree regeneration and herbaceous vegetation cover in thinned, thinned and pile burned, and non‐thinned control stands. Growth rates of small conifer saplings threatening to outcompete and replace aspen were also measured. Two to four years after pile burning, herbaceous vegetation cover within the footprint of burned piles (i.e. burn scars) was 35–73% of that in adjacent areas. Aspen was more likely to regenerate inside burn scars where fewer surrounding trees were true firs. Conifer seedlings were more likely to regenerate in burn scars where more of the surrounding trees were conifers (pine or fir) as opposed to aspen. Fir saplings had much slower growth than did aspen saplings. Overall, our findings show that restoration treatments are promoting desirable outcomes such as enhancing aspen regeneration but that follow‐up treatments will be needed to remove numerous conifer seedlings becoming established after restoration activities. Eliminating conifers, while they are small, growing slowly, and contributing little to fuel loads may be an economical way to prolong restoration treatment effectiveness.     

Short-term responses of birds to prescribed fire in fire-suppressed forests of California

Prescribed fire is one tool for restoring fire-suppressed forests, but application of fire during spring coincides with breeding and arrival of migrant birds. We examined effects of low-severity prescribed fires on counts of birds in a managed forest in the Sierra Nevada of California immediately, 1 year, and 3–6 years after fire was applied in spring. Of 26 species analyzed, counts of 3 species increased after fire (Pacific-slope flycatcher [Empidonax difficilis], brown creeper [Certhia americana], and American robin [Turdus migratorius]), and 6 species decreased after fire (Anna's hummingbird [Calypte anna], Hutton's vireo [Vireo huttoni], warbling vireo [Vireo gilvus], golden-crowned kinglet [Regulus satrapa], Nashville warbler [Vermivora ruficapilla], hermit warbler [Dendroica occidentalis]). Black-throated gray warbler (Dendroica nigrescens) increased in the first year following fire but decreased 3–6 years after fire. When grouped into guilds, habitat association and foraging guild best explained responses to fire, with the greatest changes occurring for oak-associated species (negative), riparian-associated species (positive), aerial foragers (positive), and bark foragers (positive). Lastly, when we compared our counts to those collected during the 1910s, changes were consistent with those predicted from fire suppression and species' affinity for burned forests, suggesting that results from contemporary fire studies should be interpreted within an ecological context that includes effects of fire suppression. We found that low-severity prescribed fires applied in spring served to drive the bird community towards pre-suppression conditions. © 2011 The Wildlife Society.     

Refugial isolation and divergence in the Narrowheaded Gartersnake species complex (Thamnophis rufipunctatus) as revealed by multilocus DNA sequence data

Glacial–interglacial cycles of the Pleistocene are hypothesized as one of the foremost contributors to biological diversification. This is especially true for cold‐adapted montane species, where range shifts have had a pronounced effect on population‐level divergence. Gartersnakes of the Thamnophis rufipunctatus species complex are restricted to cold headwater streams in the highlands of the Sierra Madre Occidental and southwestern USA. We used coalescent and multilocus phylogenetic approaches to test whether genetic diversification of this montane‐restricted species complex is consistent with two prevailing models of range fluctuation for species affected by Pleistocene climate changes. Our concatenated nuDNA and multilocus species analyses recovered evidence for the persistence of multiple lineages that are restricted geographically, despite a mtDNA signature consistent with either more recent connectivity (and introgression) or recent expansion (and incomplete lineage sorting). Divergence times estimated using a relaxed molecular clock and fossil calibrations fall within the Late Pleistocene, and zero gene flow scenarios among current geographically isolated lineages could not be rejected. These results suggest that increased climate shifts in the Late Pleistocene have driven diversification and current range retraction patterns and that the differences between markers reflect the stochasticity of gene lineages (i.e. ancestral polymorphism) rather than gene flow and introgression. These results have important implications for the conservation of T. rufipunctatus (sensu novo), which is restricted to two drainage systems in the southwestern US and has undergone a recent and dramatic decline.     

A Method for Capturing Pygmy Rabbits in Summer

Abstract: Degradation of sagebrush habitat and a lack of information on current status motivated a petition to list the pygmy rabbit (Brachylagus idahoensis) as threatened or endangered under the Endangered Species Act. The petition brought on renewed interest in obtaining data on pygmy rabbits; however, pygmy rabbits are notoriously difficult to capture, especially in summer. We tested box-trap, net, noose-pole, and fabric-fence methods to capture pygmy rabbits in 4 areas of northern Nevada and eastern California, USA. We captured 25 different pygmy rabbits in 30 captures from April 2005 to July 2006. The combination of camouflaged box traps baited with canned green beans was 35% more successful and required less effort per captured rabbit than any other method. Noose-pole methods also were successful. These techniques provide an efficient method of capturing pygmy rabbits in summer when many remote field sites are most accessible.     

Phenology and productivity in a montane bird assemblage: Trends and responses to elevation and climate variation

Climate variation has been linked to historical and predicted future distributions and dynamics of wildlife populations. However, demographic mechanisms underlying these changes remain poorly understood. Here, we assessed variation and trends in climate (annual snowfall and spring temperature anomalies) and avian demographic variables from mist‐netting data (breeding phenology and productivity) at six sites along an elevation gradient spanning the montane zone of Yosemite National Park between 1993 and 2017. We implemented multi‐species hierarchical models to relate demographic responses to elevation and climate covariates. Annual variation in climate and avian demographic variables was high. Snowfall declined (10 mm/year at the highest site, 2 mm at the lowest site), while spring temperature increased (0.045°C/year) over the study period. Breeding phenology (mean first capture date of juvenile birds) advanced by 0.2 day/year (5 days); and productivity (probability of capturing a juvenile bird) increased by 0.8%/year. Breeding phenology was 12 days earlier at the lowest compared to highest site, 18 days earlier in years with lowest compared to highest snowfall anomalies, and 6 d earlier in relatively warm springs (after controlling for snowfall effects). Productivity was positively related to elevation. However, elevation–productivity responses varied among species; species with higher productivity at higher compared to lower elevations tended to be species with documented range retractions during the past century. Productivity tended to be negatively related to snowfall and was positively related to spring temperature. Overall, our results suggest that birds have tracked the variable climatic conditions in this system and have benefited from a trend toward warmer, drier springs. However, we caution that continued warming and multi‐year drought or extreme weather years may alter these relationships in the future. Multi‐species demographic modeling, such as implemented here, can provide an important tool for guiding conservation of species assemblages under global change.     

Assessing lek attendance of male greater sage-grouse using fine-resolution GPS data: Implications for population monitoring of lek mating grouse

Counts of males displaying on breeding grounds are the primary management tool used to assess population trends in lekking grouse species. Despite the importance of male lek attendance (i.e., proportion of males on leks available for detection) influencing lek counts, patterns of within season and between season variability in attendance rates are not well understood. We used high-frequency global positioning system (GPS) telemetry data from male greater sage-grouse (Centrocercus urophasianus; n = 67) over five lekking seasons (2013–2017) at eight study sites in Nevada to estimate lek attendance rates. Specifically, we recorded daily locations of sage-grouse in relation to mapped lek boundaries and used generalized additive models to assess temporal variation in attendance rates by age class (subadult vs. adult). Average timing of peak attendance occurred on 16 April but varied from March 16, 2014 to April 21 , 2016. Overall, adult males attended leks at higher rates (0.683 at peak) and earlier in the season (19 March) than subadults (0.421 at peak on April 19). Peak attendance probability was positively related to cumulative winter precipitation. Daily probabilities of lek switching differed between adults (0.019 at peak on March 3) and subadults (0.046 at peak on March 22), and lek switching was negatively related to distance to nearest lek. Our results indicate variable patterns in lek attendance through time, and that lek switching may occur at higher rates than previously thought. We demonstrate the use of generalizable daily attendance curves to date-correct lek counts and derive estimates of male abundance, although such an approach will likely require the incorporation of information on age structure to produce robust results that are useful for population monitoring.     

Pseudomonas soli sp. nov., a novel producer of xantholysin congeners

A chemoorganotrophic Gram-negative bacterium was isolated by means of a diffusion sandwich system from a soil sample from the Sierra Nevada National Park, Spain. Strain F-279,208^T was oxidase and catalase positive, strictly aerobic, non-spore-forming and motile by single polar flagellum. Phylogenetic analysis of the 16S rRNA, gyrB, rpoB and rpoD genes revealed that strain F-279,208^T belongs to the Pseudomonas putida group with Pseudomonas mosselii and Pseudomonas entomophila as its closest relatives. DNA–DNA hybridization assays and phenotypic traits confirmed that this strain belongs to a novel species of the genus Pseudomonas, for which the name Pseudomonas soli sp. nov. is proposed. The type strain is F-279,208^T (=DSM 28043^T = LMG 27941^T), and during fermentation it produces xantholysins, a family of lipodepsipeptides. The major compound, xantholysin A, showed an interesting activity in a RCC4 kidney tumor cell line with inactivation of VHL linked with the HIF pathway, without any cytotoxic effects against other human tumor cell lines tested including, liver, pancreas and breast.     

Avian Response to Mechanical Aspen Restoration in Sierra Nevada Coniferous Forest

Using mechanical treatments to mimic natural disturbances is becoming a standard management and restoration approach. In the Sierra Nevada, as throughout much of western North America, much of aspen habitat is in poor health. Because of the high ecological value of healthy aspen, and its limited extent on the landscape, restoration to reverse the decline and improve stand health has become a management priority in the region. To evaluate the ecological effects of mechanically removing competing conifers to restore aspen in the Sierra Nevada, we compared vegetation characteristics and bird abundance in treated and untreated aspen stands on the Lassen National Forest before and up to 13 years after mechanical conifer removal. Treatments reduced total canopy cover and increased herbaceous cover and the number of aspen stems, while shrub and overstory aspen covers were unchanged. Of 10 aspen focal bird species, 7 increased in abundance following treatment relative to controls, including all species associated with early seral aspen habitat and cavity nesting species; none declined. In contrast, of the six conifer focal species, the four associated with denser conifer habitat declined as a result of the treatments. The two species associated with conifer edges and understory cover increased. Our results demonstrate mechanical conifer removal treatments can provide ecologically meaningful changes in habitat for the avian community and are an effective tool for restoring ecological values of degraded aspen habitat for birds in the Sierra Nevada.     

Effects of ungulates on epigeal arthropods in Sierra Nevada National Park (southeast Spain)

This paper examines the effect of ungulates on epigeal arthropod communities in two common plant communities of the high mountains of the Sierra Nevada (southeast Spain). We have compared the abundance, biomass, diversity and specific composition of arthropod communities in grazed and ungrazed plots experimentally excluded from ungulates. In general, we found that arthropods were more abundant and diverse in grazed than in ungrazed plots. However, the effect of ungulates depended on the variable considered (diversity versus abundance versus biomass). Moreover, ungulates also affected species composition. This means that without affecting diversity, ungulates can still have a strong effect on arthropod communities by changing species composition. Also, the relationship between ungulates and arthropods differed depending on the year of study and the sampling period. In conclusion, our study indicates that to extrapolate the results obtained for a group of insects, a habitat or a sampling period is not appropriate for the conservation of arthropod communities.