Genetic sampling for estimating density of common species.

Understanding population dynamics requires reliable estimates of population density, yet this basic information is often surprisingly difficult to obtain. With rare or difficult-to-capture species, genetic surveys from noninvasive collection of hair or scat has proved cost-efficient for estimating densities. Here, we explored whether noninvasive genetic sampling (NGS) also offers promise for sampling a relatively common species, the snowshoe hare (Lepus americanus Erxleben, 1777), in comparison with traditional live trapping. We optimized a protocol for single-session NGS sampling of hares. We compared spatial capture-recapture population estimates from live trapping to estimates derived from NGS, and assessed NGS costs. NGS provided population estimates similar to those derived from live trapping, but a higher density of sampling plots was required for NGS. The optimal NGS protocol for our study entailed deploying 160 sampling plots for 4 days and genotyping one pellet per plot. NGS laboratory costs ranged from approximately $670 to$3000 USD per field site. While live trapping does not incur laboratory costs, its field costs can be considerably higher than for NGS, especially when study sites are difficult to access. We conclude that NGS can work for common species, but that it will require field and laboratory pilot testing to develop cost-effective sampling protocols

Densidade Da Jaguatirica Em Um Ambiente Semiárido No Nordeste Do Brasil

Ocelots play a key role in ecological communities as mesopredators affecting the lower trophic level and other mesopredators. They show great variability in ecological traits across their distribution, but knowledge of this species is missing in several regions where it occurs. Here, we present the first study of ocelot in the Brazilian semiarid of Caatinga. Arid habitats might keep carnivore population density low and therefore vulnerable to environmental shocks and to human-induced changes, at risk of local extinction. To assess their population status, we used camera traps between September 2009 and January 2010. We estimated the density of ocelots using a spatially explicit capture-recapture method (SECR) to be 3.16 ± 0.46 individuals per 100 km2. This is a low-density estimate for ocelots, which might reflect the harsh conditions of the arid habitat. A longer population study of the ocelot can answer if this low population density is enough for a long-term persistence of this species in this and other arid environments. © 2016, Universidade Estadual de Campinas UNICAMP. All rights reserved.16

Neuro-Metabolite Changes in a Single Season of University Ice Hockey Using Magnetic Resonance Spectroscopy

Background: Previous research has shown evidence for transient neuronal loss after repetitive head impacts (RHI) as demonstrated by a decrease in N-acetylaspartate (NAA). However, few studies have investigated other neuro-metabolites that may be altered in the presence of RHI; furthermore, the relationship of neuro-metabolite changes to neurocognitive outcome and potential sex differences remain largely unknown.Objective: The aim of this study was to identify alterations in brain metabolites and their potential association with neurocognitive performance over time as well as to characterize sex-specific differences in response to RHI.Methods: 33 collegiate ice hockey players (17 males and 16 females) underwent 3T magnetic resonance spectroscopy (MRS) and neurocognitive evaluation before and after the Canadian Interuniversity Sports (CIS) ice hockey season 2011–2012. The MRS voxel was placed in the corpus callosum. Pre- and postseason neurocognitive performances were assessed using the Immediate Post-Concussion Assessment and Cognitive Test (ImPACT). Absolute neuro-metabolite concentrations were then compared between pre- and postseason MRS were (level of statistical significance after correction for multiple comparisons: p < 0.007) and correlated to ImPACT scores for both sexes.Results: A significant decrease in NAA was observed from preseason to postseason (p = 0.001). Furthermore, a trend toward a decrease in total choline (Cho) was observed (p = 0.044). Although no overall effect was observed for glutamate (Glu) over the season, a difference was observed with females showing a decrease in Glu and males showing an increase in Glu, though this was not statistically significant (p = 0.039). In both males and females, a negative correlation was observed between changes in Glu and changes in verbal memory (p = 0.008).Conclusion: The results of this study demonstrate changes in absolute concentrations of neuro-metabolites following exposure to RHI. Results suggest that changes in Glu are correlated with changes in verbal memory. Future studies need to investigate further the association between brain metabolites and clinical outcome as well as sex-specific differences in the brain's response to RHI

Fine-scale distributions of carnivores in a logging concession in Sarawak, Malaysian Borneo

Coarse-scale patterns of distribution and abundance of species are the outcome of processes occurring at finer spatial scales, hence the conservation of species depends on understanding their fine-scale ecology. For Bornean carnivores, little is known about fine-scale predictors of species occurrence and it is assumed that the two main threats to wildlife on Borneo, habitat disturbance and hunting, also impact their occurrence. To increase our understanding of the Borneo carnivore community, we deployed 60 cameras in a logging concession in northern Sarawak, Malaysian Borneo, where different landscape covariates, both natural and anthropogenic, were present. We built single-species occupancy models to investigate fine-scale carnivore occupancy. Overall, forest disturbance had a negative effect on Hose's civet (Diplogale hosei), banded civet (Hemigalus derbyanus) and yellow-throated marten (Martes flavigula). Further, banded civet had greater occupancy probabilities in more remote areas. Logging roads had the most diverse effect on carnivore occupancy, with Hose's civet and masked palm civet (Paguma larvata) negatively affected by roads, whereas Malay civet (Viverra tangalunga), short-tailed mongoose (Herpestes brachyurus) and leopard cat (Prionailurus bengalensis) showed higher occupancy closer to roads. Canopy height, canopy closure, number of trees with holes (cavities) and distance to nearest village also affected occupancy, though the directions of these effects varied among species. Our results highlight the need to collect often overlooked habitat variables: moss cover and ‘kerangas’ (tropical heath forest) were the most important variables predicting occurrence of Hose's civet. The preservation of such forest conditions may be crucial for the long-term conservation of this little-known species. Our results confirm that logged forests, when left to regenerate, can host diverse carnivore communities on Borneo, provided less disturbed habitat is available nearby, though human access needs to be controlled. We recommend easy-to-implement forest management strategies including maintaining forest next to logging roads; preserving fruiting trees and trees with cavities, both standing and fallen; and blocks of remote, less disturbed, mid- to high-elevation forest with understorey vegetation

Characterising soundscapes across diverse ecosystems using a universal acoustic feature set

Natural habitats are being impacted by human pressures at an alarming rate. Monitoring these ecosystem-level changes often requires labor-intensive surveys that are unable to detect rapid or unanticipated environmental changes. Here we have developed a generalizable, data-driven solution to this challenge using eco-acoustic data. We exploited a convolutional neural network to embed soundscapes from a variety of ecosystems into a common acoustic space. In both supervised and unsupervised modes, this allowed us to accurately quantify variation in habitat quality across space and in biodiversity through time. On the scale of seconds, we learned a typical soundscape model that allowed automatic identification of anomalous sounds in playback experiments, providing a potential route for real-time automated detection of irregular environmental behavior including illegal logging and hunting. Our highly generalizable approach, and the common set of features, will enable scientists to unlock previously hidden insights from acoustic data and offers promise as a backbone technology for global collaborative autonomous ecosystem monitoring efforts

Exposure to repetitive head impacts is associated with corpus callosum microstructure and plasma total tau in former professional American football players

BACKGROUND: Exposure to repetitive head impacts (RHI) is associated with an increased risk of later-life neurobehavioral dysregulation and neurodegenerative disease. The underlying pathomechanisms are largely unknown. PURPOSE: To investigate whether RHI exposure is associated with later-life corpus callosum (CC) microstructure and whether CC microstructure is associated with plasma total tau and neuropsychological/neuropsychiatric functioning. STUDY TYPE: Retrospective cohort study. POPULATION: Seventy-five former professional American football players (age 55.2 ± 8.0 years) with cognitive, behavioral, and mood symptoms. FIELD STRENGTH/SEQUENCE: Diffusion-weighted echo-planar MRI at 3 T. ASSESSMENT: Subjects underwent diffusion MRI, venous puncture, neuropsychological testing, and completed self-report measures of neurobehavioral dysregulation. RHI exposure was assessed using the Cumulative Head Impact Index (CHII). Diffusion MRI measures of CC microstructure (i.e., free-water corrected fractional anisotropy (FA), trace, radial diffusivity (RD), and axial diffusivity (AD)) were extracted from seven segments of the CC (CC1-7), using a tractography clustering algorithm. Neuropsychological tests were selected: Trail Making Test Part A (TMT-A) and Part B (TMT-B), Controlled Oral Word Association Test (COWAT), Stroop Interference Test, and the Behavioral Regulation Index (BRI) from the Behavior Rating Inventory of Executive Function, Adult version (BRIEF-A). STATISTICAL TESTS: Diffusion MRI metrics were tested for associations with RHI exposure, plasma total tau, neuropsychological performance, and neurobehavioral dysregulation using generalized linear models for repeated measures. RESULTS: RHI exposure was associated with increased AD of CC1 (correlation coefficient (r) = 0.32, P < 0.05) and with increased plasma total tau (r = 0.34, P < 0.05). AD of the anterior CC1 was associated with increased plasma total tau (CC1: r = 0.30, P < 0.05; CC2: r = 0.29, P < 0.05). Higher trace, AD, and RD of CC1 were associated with better performance (P < 0.05) in TMT-A (trace, r = 0.33; AD, r = 0.31; and RD, r = 0.28) and TMT-B (trace, r = 0.31; RD, r = 0.34). Higher FA and AD of CC2 were associated with better performance (P < 0.05) in TMT-A (FA, r = 0.36; AD, r = 0.28), TMT-B (FA, r = 0.36; AD, r = 0.27), COWAT (FA, r = 0.36; AD, r = 0.32), and BRI (AD, r = 0.29). DATA CONCLUSION: These results suggest an association among RHI exposure, CC microstructure, plasma total tau, and clinical functioning in former professional American football players. LEVEL OF EVIDENCE: 3 Technical Efficacy Stage: 1

Jaguar Densities across Human-Dominated Landscapes in Colombia: The Contribution of Unprotected Areas to Long Term Conservation

Large carnivores such as jaguars (Panthera onca) are species of conservation concern because they are suffering population declines and are keystone species in their ecosystems. Their large area requirements imply that unprotected and ever-increasing agricultural regions can be important habitats as they allow connectivity and dispersal among core protected areas. Yet information on jaguar densities across unprotected landscapes it is still scarce and crucially needed to assist management and range-wide conservation strategies. Our study provides the first jaguar density estimates of Colombia in agricultural regions which included cattle ranching, the main land use in the country, and oil palm cultivation, an increasing land use across the Neotropics. We used camera trapping across two agricultural landscapes located in the Magdalena River valley and in the Colombian llanos (47–53 stations respectively; >2000 trap nights at both sites) and classic and spatially explicit capture-recapture models with the sex of individuals as a covariate. Density estimates were 2.52±0.46–3.15±1.08 adults/100 km2 in the Magdalena valley, whereas 1.12±0.13–2.19±0.99 adults/100 km2 in the Colombian llanos, depending on analysis used. We suggest that jaguars are able to live across unprotected human-use areas and co-exist with agricultural landscapes including oil-palm plantations if natural areas and riparian habitats persist in the landscape and hunting of both jaguar and prey is limited. In the face of an expanding agriculture across the tropics we recommend land-use planning, adequate incentives, regulations, and good agricultural practices for range-wide jaguar connectivity and survival

How Does Spatial Study Design Influence Density Estimates from Spatial Capture-Recapture Models?

When estimating population density from data collected on non-invasive detector arrays, recently developed spatial capture-recapture (SCR) models present an advance over non-spatial models by accounting for individual movement. While these models should be more robust to changes in trapping designs, they have not been well tested. Here we investigate how the spatial arrangement and size of the trapping array influence parameter estimates for SCR models. We analysed black bear data collected with 123 hair snares with an SCR model accounting for differences in detection and movement between sexes and across the trapping occasions. To see how the size of the trap array and trap dispersion influence parameter estimates, we repeated analysis for data from subsets of traps: 50% chosen at random, 50% in the centre of the array and 20% in the South of the array. Additionally, we simulated and analysed data under a suite of trap designs and home range sizes. In the black bear study, we found that results were similar across trap arrays, except when only 20% of the array was used. Black bear density was approximately 10 individuals per 100 km2. Our simulation study showed that SCR models performed well as long as the extent of the trap array was similar to or larger than the extent of individual movement during the study period, and movement was at least half the distance between traps. SCR models performed well across a range of spatial trap setups and animal movements. Contrary to non-spatial capture-recapture models, they do not require the trapping grid to cover an area several times the average home range of the studied species. This renders SCR models more appropriate for the study of wide-ranging mammals and more flexible to design studies targeting multiple species

From Galician waters to cetacean stomachs, a feeding story told by preys

34th European Cetacean Society Conference, O Grove, 16-20 April 2023Cetaceans play an important role in maintaining the health and stability of marine ecosystems. To understand the trophic relationships of these top predators in waters off the Northwest Iberian Peninsula, and to determine their possible competition with fisheries, the stomach contents of 751 common dolphins (Delphinus delphis), 60 striped dolphins (Stenella coeruleoalba), 124 bottlenose dolphins (Tursiops truncatus), and 72 harbour porpoises (Phocoena phocoena) stranded on the Galician coast between 1990-2018 (almost 30 years) were analysed. Results indicated that their diets are mainly piscivorous (after identified 90 different taxa: 68 fish and 22 cephalopods), being the blue whiting (Micromesistius poutassou) and the European hake (Merluccius merluccius) the most important preys (in occurrence, number, and biomass) throughout all the years studied and for the four cetacean species. The long time series available allowed to detect interannual variation in the diet of both common dolphins and harbour porpoises by means of Generalised Additive Models (GAMs), observing an increase in the presence of European hake and a decrease of sardines (Sardina pilchardus) in the stomachs through time. Seasonal variation in the diets of the common and striped dolphins were also observed, with a higher consumption of blue whiting during the summer (May-September). Significant differences were found in the diet of the two bottlenose dolphin ecotypes present in Galicia, the coastal ecotype contains a higher percentage of demersal preys in the stomachs, while the oceanic ecotype contains more pelagic preys, confirming the habitat separation between the two. Results also confirmed an ontogenic variability in the diet of harbour porpoises, with juvenile animals showing a higher presence of coastal preys in the diet (e.g., pouting – Trisopterus luscus). There is an overlap between the diet of these four cetacean species and the fisheries‟ target species in the area, indicating competition for some resourcesN