Ungulate migrations are assumed to stem from learning and cultural transmission of information regarding seasonal distribution of forage, but this hypothesis has not been tested empirically. We ...compared the migratory propensities of bighorn sheep and moose translocated into novel habitats with those of historical populations that had persisted for hundreds of years. Whereas individuals from historical populations were largely migratory, translocated individuals initially were not. After multiple decades, however, translocated populations gained knowledge about surfing green waves of forage (tracking plant phenology) and increased their propensity to migrate. Our findings indicate that learning and cultural transmission are the primary mechanisms by which ungulate migrations evolve. Loss of migration will therefore expunge generations of knowledge about the locations of high-quality forage and likely suppress population abundance.
There are two species of free-roaming feral equids in North America: horses (Equus caballus) and donkeys or "burros" (E. asinus). Both species were introduced as domestic animals to North America in ...the early 1500s and currently inhabit rangelands across the western United States, Canada, and all continents except Antarctica. Despite their global distribution, little is known about their fine scale spatial ecology. Contemporary research tools to assess space use include global positioning system (GPS) tracking collars, but older models were problematic due to stiff collar belting causing poor fit. We tested modern designs of GPS collars on n = 105 horses and n = 60 burros for 4 years in five populations (3 horse, 2 burro) across the western United States, to assess whether collars posed welfare risks to horses or burros. We found no difference in survival of collared versus uncollared mares and jennies, and no difference in survival of their foals. In 4036 of 4307 observations for horses (93.7%) and 2115 of 2258 observations for burros (93.6%), collars were observed symmetrical, maintaining proper fit on the neck. Fur effects from collars (sweaty neck, indented fur, broken fur) were seen in 3% of horse observations and 25% of burro observations. Superficial effects (chafes and marks on skin surface) were seen in 2% of horse observations and 11% of burro observations; no severe effects from collars were seen. Body condition was not affected by collars; mean body condition of collared horses was 4.70 ± 0.54 (mean ± s.d) and 4.71 ± 0.65 for collared burros. Behavior results indicated minimal effects; collared horses stood slightly more than uncollared, and collared burros stood and foraged more in one population, but not in the other. For 6.3% of observations of horses and 6.4% of observations of burros, we found an effect of time wearing a collar on the cumulative sum of fur effects which increased over time (burros: rs = 0.87, P = <0.0001; horses: rs = 0.31, P = 0.002). Burros also showed an increase over time in the number of superficial effects, but horses did not. Collars occasionally moved into the wrong position, shifting forward over the ears; we observed this on 19 horses and 1 burro. Of those, most collars went over the ears in summer (n = 12). All collars were equipped with a remote release mechanism as well as a timed-release mechanism for redundancy, thus removed when observed in wrong position to avoid rubbing or discomfort. Our finding of no consequential physical effects in 98% of horse observations, and 89% of burro observations suggests the consequences of collars on free-roaming equid welfare and survival is biologically insignificant, although collars should be monitored regularly and continue to be equipped with a remote release mechanism to remove a collar if needed. With frequent welfare-driven, visual monitoring, collaring of free-roaming equids can be a safe and useful tool to increase our understanding of their spatial ecology, demography, habitat use, behavior, and interactions with other wildlife.
DNA from phylogenetically diverse microbes is routinely recovered from healthy human lungs and used to define the lung microbiome. The proportion of this DNA originating from microbes adapted to the ...lungs, as opposed to microbes dispersing to the lungs from other body sites and the atmosphere, is not known. We use a neutral model of community ecology to distinguish members of the lung microbiome whose presence is consistent with dispersal from other body sites and those that deviate from the model, suggesting a competitive advantage to these microbes in the lungs. We find that the composition of the healthy lung microbiome is consistent with predictions of the neutral model, reflecting the overriding role of dispersal of microbes from the oral cavity in shaping the microbial community in healthy lungs. In contrast, the microbiome of diseased lungs was readily distinguished as being under active selection. We also assessed the viability of microbes from lung samples by cultivation with a variety of media and incubation conditions. Bacteria recovered by cultivation from healthy lungs represented species that comprised 61% of the 16S rRNA-encoding gene sequences derived from bronchoalveolar lavage samples.
Neutral distribution of microbes is a distinguishing feature of the microbiome in healthy lungs, wherein constant dispersal of bacteria from the oral cavity overrides differential growth of bacteria. No bacterial species consistently deviated from the model predictions in healthy lungs, although representatives of many of the dispersed species were readily cultivated. In contrast, bacterial populations in diseased lungs were identified as being under active selection. Quantification of the relative importance of selection and neutral processes such as dispersal in shaping the healthy lung microbiome is a first step toward understanding its impacts on host health.
No studies have examined the relationships between bacterial communities along sites of the upper aerodigestive tract of an individual subject. Our objective was to perform an intrasubject and ...intersite analysis to determine the contributions of two upper mucosal sites (mouth and nose) as source communities for the bacterial microbiome of lower sites (lungs and stomach). Oral wash, bronchoalveolar lavage (BAL) fluid, nasal swab, and gastric aspirate samples were collected from 28 healthy subjects. Extensive analysis of controls and serial intrasubject BAL fluid samples demonstrated that sampling of the lungs by bronchoscopy was not confounded by oral microbiome contamination. By quantitative PCR, the oral cavity and stomach contained the highest bacterial signal levels and the nasal cavity and lungs contained much lower levels. Pyrosequencing of 16S rRNA gene amplicon libraries generated from these samples showed that the oral and gastric compartments had the greatest species richness, which was significantly greater in both than the richness measured in the lungs and nasal cavity. The bacterial communities of the lungs were significantly different from those of the mouth, nose, and stomach, while the greatest similarity was between the oral and gastric communities. However, the bacterial communities of healthy lungs shared significant membership with the mouth, but not the nose, and marked subject-subject variation was noted. In summary, microbial immigration from the oral cavity appears to be the significant source of the lung microbiome during health, but unlike the stomach, the lungs exhibit evidence of selective elimination of Prevotella bacteria derived from the upper airways.
We have demonstrated that the bacterial communities of the healthy lung overlapped those found in the mouth but were found at lower concentrations, with lower membership and a different community composition. The nasal microbiome, which was distinct from the oral microbiome, appeared to contribute little to the composition of the lung microbiome in healthy subjects. Our studies of the nasal, oral, lung, and stomach microbiomes within an individual illustrate the microbiological continuity of the aerodigestive tract in healthy adults and provide culture-independent microbiological support for the concept that microaspiration is common in healthy individuals.
Results from 16S rDNA-encoding gene sequence-based, culture-independent techniques have led to conflicting conclusions about the composition of the lower respiratory tract microbiome.
To compare the ...microbiome of the upper and lower respiratory tract in healthy HIV-uninfected nonsmokers and smokers in a multicenter cohort.
Participants were nonsmokers and smokers without significant comorbidities. Oral washes and bronchoscopic alveolar lavages were collected in a standardized manner. Sequence analysis of bacterial 16S rRNA-encoding genes was performed, and the neutral model in community ecology was used to identify bacteria that were the most plausible members of a lung microbiome.
Sixty-four participants were enrolled. Most bacteria identified in the lung were also in the mouth, but specific bacteria such as Enterobacteriaceae, Haemophilus, Methylobacterium, and Ralstonia species were disproportionally represented in the lungs compared with values predicted by the neutral model. Tropheryma was also in the lung, but not the mouth. Mouth communities differed between nonsmokers and smokers in species such as Porphyromonas, Neisseria, and Gemella, but lung bacterial populations did not.
This study is the largest to examine composition of the lower respiratory tract microbiome in healthy individuals and the first to use the neutral model to compare the lung to the mouth. Specific bacteria appear in significantly higher abundance in the lungs than would be expected if they originated from the mouth, demonstrating that the lung microbiome does not derive entirely from the mouth. The mouth microbiome differs in nonsmokers and smokers, but lung communities were not significantly altered by smoking.
Multiple independent culture-based studies have identified the presence of Pseudomonas aeruginosa in respiratory samples as a positive risk factor for bronchiolitis obliterans syndrome (BOS). Yet, ...culture-independent microbiological techniques have identified a negative association between Pseudomonas species and BOS. Our objective was to investigate whether there may be a unifying explanation for these apparently dichotomous results.
We performed bronchoscopies with bronchoalveolar lavage (BAL) on lung transplant recipients (46 procedures in 33 patients) and 26 non-transplant control subjects. We analyzed bacterial communities in the BAL fluid using qPCR and pyrosequencing of 16S rRNA gene amplicons and compared the culture-independent data with the clinical metadata and culture results from these subjects.
Route of bronchoscopy (via nose or via mouth) was not associated with changes in BAL microbiota (p = 0.90). Among the subjects with positive Pseudomonas bacterial culture, P. aeruginosa was also identified by culture-independent methods. In contrast, a distinct Pseudomonas species, P. fluorescens, was often identified in asymptomatic transplant subjects by pyrosequencing but not detected via standard bacterial culture. The subject populations harboring these two distinct pseudomonads differed significantly with respect to associated symptoms, BAL neutrophilia, bacterial DNA burden and microbial diversity. Despite notable differences in culturability, a global database search of UM Hospital Clinical Microbiology Laboratory records indicated that P. fluorescens is commonly isolated from respiratory specimens.
We have reported for the first time that two prominent and distinct Pseudomonas species (P. fluorescens and P. aeruginosa) exist within the post-transplant lung microbiome, each with unique genomic and microbiologic features and widely divergent clinical associations, including presence during acute infection.
Hunter harvest of greater sage-grouse (Centrocercus urophasianus; hereafter "sage-grouse") has been regulated by wildlife agencies during most of the past century. Hunting season regulations were ...maintained with the intention of providing sustainable hunting opportunities. Sage-grouse populations oscillate over time, and population growth can be influenced by seasonal weather and habitat disturbance. From 1995-2013, we compared sage-grouse lek trends from 22 relatively distinct sage-grouse population segments in 9 western U.S. states and 2 Canadian provinces. We stratified these populations into 3 broad categories (non-hunted n = 8, continuously hunted n = 10, and hunting season discontinued between 1996-2003 n = 4) with 8 different regulation histories to evaluate the potential impact of harvest on sage-grouse populations. Concomitantly, we assessed the effects of proportion burned, forested and cropland habitat; winter, spring, and summer precipitation; and human population, road, and oil and gas well densities on initial and time-varying lek counts. Density-dependent models fit lek trend data best for all regulation histories. In general, higher proportions of burnt, forested, and cropland habitat; and greater human population and oil and gas well densities were associated with lower equilibrium abundance (K). We found mixed results regarding the effect of hunting regulations on instantaneous growth rate (r). The cessation of harvest from 1996-2001 in approximately half of the largest sage-grouse population in our analysis was associated with higher r. Continuously harvested sage-grouse populations with permit hunting seasons had higher r during years with higher proportion of area exposed to permitted hunting rather than general upland game seasons. However, more liberal hunting regulations were positively associated with higher r in populations continuously harvested under general upland game hunts. Our results suggest that discontinuing harvest in the largest population resulted in greater population growth rates; however, this was not consistently the case for smaller populations. To no surprise, not all sage-grouse populations were influenced by the same environmental change or human disturbance factors. Our results will assist managers to understand factors associated with K, which provides the best targets for conservation efforts.
Host microbial communities (hereafter, the ‘microbiome’) are recognized as an important aspect of host health and are gaining attention as a useful biomarker to understand the ecology and ...demographics of wildlife populations. Several studies indicate that the microbiome may contribute to the adaptive capacity of animals to changing environments associated with increasing habitat fragmentation and rapid climate change. To this end, we investigated the gut microbiome of pronghorn ( Antilocapra americana ), an iconic species in an environment that is undergoing both climatic and anthropogenic change. The bacterial composition of the pronghorn gut microbiome has yet to be described in the literature, and thus our study provides important baseline information about this species. We used 16S rRNA amplicon sequencing of fecal samples to characterize the gut microbiome of pronghorn—a facultative sagebrush ( Artemisia spp .) specialist in many regions where they occur in western North America. We collected fecal pellets from 159 captured female pronghorn from four herds in the Red Desert of Wyoming during winters of 2013 and 2014. We found small, but significant differences in diversity of the gut microbiome relative to study area, capture period, and body fat measurements. In addition, we found a difference in gut microbiome composition in pronghorn across two regions separated by Interstate 80. Results indicated that the fecal microbiome may be a potential biomarker for the spatial ecology of free-ranging ungulates. The core gut microbiome of these animals—including bacteria in the phyla Firmicutes (now Bacillota) and Bacteroidota—remained relatively stable across populations and biological metrics. These findings provide a baseline for the gut microbiome of pronghorn that could potentially be used as a target in monitoring health and population structure of pronghorn relative to habitat fragmentation, climate change, and management practices.
Wild horse (Equus ferus caballus) management in western North America is an escalating concern for ecological integrity on these landscapes. Identifying potential diet overlap among horses, ...livestock, and wildlife will inform management decisions to optimize multiple interests.To understand dietary relationships, we conducted a quantitative synthesis of microhistological fecal studies for wild horse, beef cattle (Bos spp.), domestic sheep (Ovis aries), elk (Cervus elaphus), pronghorn (Antilocapra americana), and mule deer (Odocoileus hemionus) diet composition on western rangelands of North America. Our search yielded 60 studies from 14 states, 1 Canadian province, and 2 Mexican states with 392 unique species-season samples. We summarized plant species into graminoid, forb, and browse functional groups. For wild horses, seasonal diet composition means for graminoids (77–89%), forbs (4–15%), and browse (3–10%) did not vary seasonally for any plant group (P ≤ 0.05). Univariate analyses and the calculation of effect sizes corroborated our finding that graminoid composition explained the potential overlap of wild horses with cattle regardless of season, with sheep and elk in the spring, with sheep in the summer, and with elk in the fall and winter. Although data indicate wild horse diets are primarily composed of graminoids, several studies reported unusual, regionally specific shifts in response to winter snow that limited graminoid accessibility, leading to higher browse composition. Season, plant composition, and ungulate assemblage may all influence dietary competition between wild horses and other large ungulate sharing western North American rangelands; however, the low and nonsignificant heterogeneity values at alpha 0.01 for cattle:horse effect size comparisons suggest that cattle and horses respond to regional and seasonal variation similarly–a result not observed for other ungulate:horse comparisons. Our meta-analysis provides a robust data set for evaluations of diet composition for wild horses, livestock, and wildlife, whereas no empirical studies have assessed all species together.
Landscape modification due to rapidly expanding energy development, in particular oil and gas, in the westernUSA, have prompted concerns over how such developments may impact wildlife. One species of ...conservation concern across much of the Intermountain West is the greater sage-grouse (Centrocercusurophasianus). Sage-grouse have been petitioned for listing under provisions of the Endangered Species Act 7 times and the state of Wyoming alone represents 64% of the extant sage-grouse population in the eastern portion of their range. Consequently, the relationship between sage-grouse populations and oil and gas development in Wyoming is an important component to managing the long-term viability of this species. We used 814 leks from the Wyoming Game and Fish Department's lek survey database and well pad data from the Wyoming Oil and Gas Conservation Commission to evaluate changes in sage-grouse lek counts as a function of oil and gas development since 1991.From 1991-2011 we found that oil and gas well-pad density increased 3.6-fold across the state and was associated with a 24% decline in the number of male sage-grouse. Using a spatial and temporally structured analysis via Geographically Weighted Regression, we found a 1-to-4 year time lag between development density and lek decline. Sage-grouse also responded to development densities at multiple spatial neighborhoods surrounding leks, including broad scales of 10 km. However, sage-grouse lek counts do not always decline as a result of oil and gas development. We found similar development densities resulting in different sage-grouse lek count responses, suggesting that development density alone is insufficient to predict the impacts that oil and gas development have on sage-grouse. Finally, our analysis suggests a maximum development density of 1 well-pad within 2 km of leks to avoid measurable impacts within 1 year, and <6 well-pads within 10 km of leks to avoid delayed impacts.
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