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14 pages, 693 KiB  
Article
Exposure of American Black Bears (Ursus americanus) to Ticks, Tick-Borne Diseases, and Intestinal Parasites in Wisconsin
by Nika S. Reichert, Daniela Mathieu, Christopher J. Katz and Kent A. Hatch
Diversity 2024, 16(9), 537; https://doi.org/10.3390/d16090537 - 2 Sep 2024
Viewed by 1055
Abstract
We surveyed 159 American black bears (Ursus americanus) over a period of three years for the occurrence of ticks, tick-borne diseases, and intestinal parasites in Wisconsin. We collected blood from the bears to test for the presence of antibodies to Borrelia [...] Read more.
We surveyed 159 American black bears (Ursus americanus) over a period of three years for the occurrence of ticks, tick-borne diseases, and intestinal parasites in Wisconsin. We collected blood from the bears to test for the presence of antibodies to Borrelia burgdorferi (Lyme disease), Rickettsia rickettsii (Rocky Mountain spotted fever (RMSF)), Babesia, Ehrlichia, Ehrlichia canis, Brucella canis, and Anaplasma phagocytophilum. We also examined scat samples for intestinal parasites. We commonly found the tick Dermacentor variabilis, but also present the first report of Rhipicephalus sanguineus on black bears. We detected antibodies to Lyme disease and RMSF. We detected antibodies to E. canis for the first time in a bear and both antibodies to R. rickettsii and A. phagocytophilum for the first time in a black bear in Wisconsin. No antibodies for Babesia or Br. canis were detected. We found eggs of the intestinal parasite Baylasascaris transfuga as well as a low number of Toxascara leonina and unknown Capillaria species occurrences in the examined feces. Full article
(This article belongs to the Special Issue Wildlife Welfare)
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<p>(<b>A</b>) Males and female black bears captured per year and per month (all years combined for each month). Black bars represent male black bears while open bars represent female black bears. (<b>B</b>) Presence/absence of ticks on black bears per year and per month. Black bars represent ticks present while open bars represent an absence of ticks. (<b>C</b>) Test results for Lyme disease per year and per month. Black bars represent a positive test, while open bars represent a negative test. (<b>D</b>) Test results for all other tick-borne diseases tested per year and per month. Black bars represent a positive test, while open bars represent a negative test. (<b>E</b>) Presence/absence of <span class="html-italic">B. transfuga</span> in black bear feces per year and per month. Black bars represent <span class="html-italic">B. transfuga</span> present, while open bars represent an absence of <span class="html-italic">B. transfuga</span>.</p>
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23 pages, 426 KiB  
Article
A Penalized Empirical Likelihood Approach for Estimating Population Sizes under the Negative Binomial Regression Model
by Yulu Ji and Yang Liu
Mathematics 2024, 12(17), 2674; https://doi.org/10.3390/math12172674 - 28 Aug 2024
Viewed by 899
Abstract
In capture–recapture experiments, the presence of overdispersion and heterogeneity necessitates the use of the negative binomial regression model for inferring population sizes. However, within this model, existing methods based on likelihood and ratio regression for estimating the dispersion parameter often face boundary and [...] Read more.
In capture–recapture experiments, the presence of overdispersion and heterogeneity necessitates the use of the negative binomial regression model for inferring population sizes. However, within this model, existing methods based on likelihood and ratio regression for estimating the dispersion parameter often face boundary and nonidentifiability issues. These problems can result in nonsensically large point estimates and unbounded upper limits of confidence intervals for the population size. We present a penalized empirical likelihood technique for solving these two problems by imposing a half-normal prior on the population size. Based on the proposed approach, a maximum penalized empirical likelihood estimator with asymptotic normality and a penalized empirical likelihood ratio statistic with asymptotic chi-square distribution are derived. To improve numerical performance, we present an effective expectation-maximization (EM) algorithm. In the M-step, optimization for the model parameters could be achieved by fitting a standard negative binomial regression model via the R basic function glm.nb(). This approach ensures the convergence and reliability of the numerical algorithm. Using simulations, we analyze several synthetic datasets to illustrate three advantages of our methods in finite-sample cases: complete mitigation of the boundary problem, more efficient maximum penalized empirical likelihood estimates, and more precise penalized empirical likelihood ratio interval estimates compared to the estimates obtained without penalty. These advantages are further demonstrated in a case study estimating the abundance of black bears (Ursus americanus) at the U.S. Army’s Fort Drum Military Installation in northern New York. Full article
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<p>(<b>A</b>) The ratio plot depicts the relationship between the frequency (<math display="inline"><semantics> <msub> <mi>f</mi> <mi>y</mi> </msub> </semantics></math>) of capture counts (<span class="html-italic">y</span>), where the dashed line represents the fitted linear model. (<b>B</b>) The log-EL ratio curve shows the profile empirical log-likelihood ratio functions with penalty (red dashed line) and without penalty (black solid line) of the abundance.</p>
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14 pages, 4035 KiB  
Case Report
Debilitating Musculoskeletal Disease in Two Free-Ranging Juvenile American Black Bears (Ursus americanus)
by Isabella C. Fahrenholz, Michelle M. Dennis, Federica Morandi, Keren E. Dittmer and Julie D. Sheldon
Animals 2024, 14(14), 2088; https://doi.org/10.3390/ani14142088 - 17 Jul 2024
Viewed by 1529
Abstract
Severe musculoskeletal disease characterized by marked joint laxity was the cause of euthanasia in two wild juvenile American black bears (Ursus americanus) admitted to a rehabilitation facility in eastern Tennessee in 2023. Previously, almost all reported musculoskeletal diseases in this population [...] Read more.
Severe musculoskeletal disease characterized by marked joint laxity was the cause of euthanasia in two wild juvenile American black bears (Ursus americanus) admitted to a rehabilitation facility in eastern Tennessee in 2023. Previously, almost all reported musculoskeletal diseases in this population were of traumatic etiology, even in malnourished yearlings. Case 1 was an orphaned 11-month-old male cub exhibiting disproportionate dwarfism, progressive immobility, and joint laxity. Necropsy findings suggested either chondrodysplasia or rickets, and imaging findings supported a skeletal dysplasia. Case 2 was a 14-month-old emaciated male yearling exhibiting joint laxity and immobility. Necropsy findings showed osteoporosis and serous atrophy of fat, and imaging findings were inconsistent with a skeletal dysplasia. Both cases were clinically inconsistent with rickets based on normal calcium, phosphorous, and parathyroid hormone concentrations; however, Case 1 had hypovitaminosis D (9 nmol/L) compared to healthy juvenile black bears. We hypothesize that Case 1 had a genetic chondrodysplasia while the osteoporosis of Case 2 was due to chronic malnutrition. The goal of this case report is to inform wildlife agencies and facilities to monitor for similar, non-trauma-related debilitating musculoskeletal disease in free-ranging bears and evaluate cases that allow us to further understand the disease processes involved. Full article
(This article belongs to the Special Issue Pathology of Wildlife in the Americas)
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<p>Case 1: Stature and pathological findings. (<b>A</b>) Stance as observed in enclosure. Note hyperextension of carpi (arrow) and disproportionate dwarfism. (<b>B</b>) Pleural surface of right hemithorax showing enlarged costochondral junctions (arrowheads). (<b>C</b>) Longitudinally transected distal femur with thickened physis (arrow). (<b>D</b>) Photomicrograph of distal femur physis; h = widened zone of hypertrophy (inset), m = metaphyseal bone. Hematoxylin and eosin (HE). Bar = 150 µm.</p>
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<p>Case 1: Sagittal MIP CT reconstructions of the elbows and shoulders (top row) and parasagittal thin-section reconstruction of the shoulders (bottom row). Notice the small and incompletely mineralized proximal humeral epiphyses, with irregular cranial margins (solid arrows), and the flattened shape of the glenoid cavities (dotted arrows). The distal humeral condyles are also smaller than normal and mildly irregular (open arrows), and the proximal radial epiphyses are small and irregularly marginated. As a result of the small epiphyses, the joint spaces appear widened.</p>
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<p>Case 2: Sagittal CT reconstruction of the spine (<b>left</b>) and oblique reconstruction of the right 13th rib, displayed in bone window (<b>right</b>). Notice the collapse of the L3–4 intervertebral disc space (solid arrow) and the smooth bridging callus at the level of a chronic rib fracture (open arrowhead). Overall bone opacity is normal.</p>
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<p>Case 2: Oblique parasagittal MIP CT reconstructions of the elbows and carpi (top row) and parasagittal thin-section reconstruction of the shoulders (bottom row). Although the proximal humeral epiphyses are incompletely mineralized, they are larger and smoother than in Case 1 (solid arrows); the glenoid cavities have a normal morphology (dotted arrows). The distal humeral condyles are normal in size and the joint space of the elbow is within normal limits. The distal physes of the radii and ulnae are only slightly smaller than expected for the age, and the carpal bones are normally mineralized (open arrowheads).</p>
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<p>Case 2: Histopathological findings. (<b>A</b>) Longitudinally transected proximal femur with thick articular cartilage and open physis (arrow). (<b>B</b>) Photomicrograph of proximal femur physis with relatively normal thickness of zone of hypertrophy (h), metaphyseal cap of bone (arrowhead), and paucity of primary spongiosa in metaphysis (m). HE. Bar = 50 µm.</p>
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18 pages, 2857 KiB  
Article
Developing a Preference Scale for a Bear: From “Bearly Like” to “Like Beary Much”
by Jennifer Vonk
Animals 2023, 13(9), 1554; https://doi.org/10.3390/ani13091554 - 6 May 2023
Cited by 1 | Viewed by 2001
Abstract
A preference scale for use by nonhuman animals would allow them to communicate their degree of liking for individual items rather than just relative preferences between pairs of items. It would also allow animals to report liking for images of objects that would [...] Read more.
A preference scale for use by nonhuman animals would allow them to communicate their degree of liking for individual items rather than just relative preferences between pairs of items. It would also allow animals to report liking for images of objects that would be difficult to directly interact with (e.g., potential mates and habitat modifications). Such scales can easily be presented using touchscreen technology. Few zoos have used touchscreen technology for species other than nonhuman primates. I present a description of efforts taken to create such a scale for use with a single zoo-housed American black bear (Ursus americanus). Although the bear did not reach a high level of proficiency with assigning preferred and non-preferred food items to categorical responses of “like” and “dislike,” she was able to learn how to use the like and dislike buttons differentially for a single preferred and less preferred food item and she selected the correct response button for the preferred item at above chance levels. These data contribute to our limited understanding of black bear cognition and suggest that conditional discriminations may be difficult for black bears. This finding can inform continued efforts to create a simpler tool for nonhumans to communicate their preferences to human caregivers in a more nuanced way than is currently possible. More generally, the current study contributes to the growing body of work supporting the use of touchscreen technology for providing enrichment to less studied species like bears. Full article
(This article belongs to the Special Issue Animal–Computer Interaction: Advances and Opportunities)
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<p>Experimental set-up showing Migwan peering from around the edge of the touchscreen.</p>
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<p>Flowchart of the phases of the experiment.</p>
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<p>Sample trials of Phase 3 NAPS with the preferred food (<bold>top</bold>) and less preferred food (<bold>bottom</bold>).</p>
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<p>Trial of Phase 5 NAPS.</p>
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<p>Average number of trials in which preferred foods were chosen during the food preference assessment.</p>
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<p>Performance on the Final NAPS Training Task.</p>
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<p>Number of Trials in which Responses were Selected for each Food in Phase Six.</p>
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<p>Response Latencies as a Function of Response and Correctness in Phase 6.</p>
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15 pages, 7245 KiB  
Article
Comparative Analysis of Olfactory Receptor Repertoires Sheds Light on the Diet Adaptation of the Bamboo-Eating Giant Panda Based on the Chromosome-Level Genome
by Chuang Zhou, Yi Liu, Guangqing Zhao, Zhengwei Liu, Qian Chen, Bisong Yue, Chao Du and Xiuyue Zhang
Animals 2023, 13(6), 979; https://doi.org/10.3390/ani13060979 - 8 Mar 2023
Cited by 2 | Viewed by 2847
Abstract
The giant panda (Ailuropoda melanoleuca) is the epitome of a flagship species for wildlife conservation and also an ideal model of adaptive evolution. As an obligate bamboo feeder, the giant panda relies on the olfaction for food recognition. The number of [...] Read more.
The giant panda (Ailuropoda melanoleuca) is the epitome of a flagship species for wildlife conservation and also an ideal model of adaptive evolution. As an obligate bamboo feeder, the giant panda relies on the olfaction for food recognition. The number of olfactory receptor (OR) genes and the rate of pseudogenes are the main factors affecting the olfactory ability of animals. In this study, we used the chromosome-level genome of the giant panda to identify OR genes and compared the genome sequences of OR genes with five other Ursidae species (spectacled bear (Tremarctos ornatus), American black bear (Ursus americanus), brown bear (Ursus arctos), polar bear (Ursus maritimus) and Asian black bear (Ursus thibetanus)). The giant panda had 639 OR genes, including 408 functional genes, 94 partial OR genes and 137 pseudogenes. Among them, 222 OR genes were detected and distributed on 18 chromosomes, and chromosome 8 had the most OR genes. A total of 448, 617, 582, 521 and 792 OR genes were identified in the spectacled bear, American black bear, brown bear, polar bear and Asian black bear, respectively. Clustering analysis based on the OR protein sequences of the six species showed that the OR genes distributed in 69 families and 438 subfamilies based on sequence similarity, and the six mammals shared 72 OR gene subfamilies, while the giant panda had 31 unique OR gene subfamilies (containing 35 genes). Among the 35 genes, there are 10 genes clustered into 8 clusters with 10 known human OR genes (OR8J3, OR51I1, OR10AC1, OR1S2, OR1S1, OR51S1, OR4M1, OR4M2, OR51T1 and OR5W2). However, the kind of odor molecules can be recognized by the 10 known human OR genes separately, which needs further research. The phylogenetic tree showed that 345 (about 84.56%) functional OR genes were clustered as Class-II, while only 63 (about 15.44%) functional OR genes were clustered as Class-I, which required further and more in-depth research. The potential odor specificity of some giant panda OR genes was identified through the similarity to human protein sequences. Sequences similar to OR2B1, OR10G3, OR11H6 and OR11H7P were giant panda-specific lacking, which may be related to the transformation and specialization from carnivore to herbivore of the giant panda. Since our reference to flavoring agents comes from human research, the possible flavoring agents from giant panda-specific OR genes need further investigation. Moreover, the conserved motifs of OR genes were highly conserved in Ursidae species. This systematic study of OR genes in the giant panda will provide a solid foundation for further research on the olfactory function and variation of the giant panda. Full article
(This article belongs to the Section Animal Genetics and Genomics)
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<p>The bamboo-eating giant panda within the Ursidae. (<b>a</b>) A photo of the giant panda was taken by Bo Luo. (<b>b</b>) The phylogenetic position of the giant panda from TimeTree (<a href="http://timetree.org/" target="_blank">http://timetree.org/</a>, accessed on 1 January 2022).</p>
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<p>Structure information of ORs of the giant panda.</p>
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<p>Chromosomal distribution of the functional OR genes of the giant panda.</p>
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<p>The phylogenetic tree of functional OR genes in the giant panda.</p>
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<p>Comparison of OR gene clusters (<b>a</b>) between four species from genus <span class="html-italic">Ursus</span> (<b>b</b>) between three different genera from family Ursidae.</p>
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<p>The five most conserved motifs of functional OR genes in six animals. The high degree of amino acid coding represents the degree of conservatism.</p>
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14 pages, 3821 KiB  
Article
Black Bear Behavior and Movements Are Not Definitive Measures of Anthropogenic Food Use
by Don W. Hardeman, Hannah B. Vander Zanden, J. Walter McCown, Brian K. Scheick and Robert A. McCleery
Animals 2023, 13(5), 950; https://doi.org/10.3390/ani13050950 - 6 Mar 2023
Viewed by 2643
Abstract
Increasing human–bear conflicts are a growing concern, and managers often assume bears in developed areas are food-conditioned. We examined the relationship between human–bear conflicts and food conditioning by analyzing isotopic values of hair from black bears (Ursus americanus floridanus) involved in [...] Read more.
Increasing human–bear conflicts are a growing concern, and managers often assume bears in developed areas are food-conditioned. We examined the relationship between human–bear conflicts and food conditioning by analyzing isotopic values of hair from black bears (Ursus americanus floridanus) involved in research (n = 34) and conflicts (n = 45). We separated research bears into wild and developed subgroups based on the impervious surface within their home ranges and separated conflict bears based on observations of human food consumption (anthropogenic = observations; management = no observations). We initially assumed wild bears were not food conditioned and anthropogenic bears were. However, using isotopic values, we classified 79% of anthropogenic bears and 8% of wild bears as food conditioned. Next, we assigned these bears to the appropriate food conditioned category and used the categorizations as a training set to classify developed and management bears. We estimated that 53% of management bears and 20% of developed bears were food conditioned. Only 60% of bears captured within or using developed areas showed evidence of food conditioning. We also found that δ13C values were a better predictor of anthropogenic foods in a bear’s diet than δ15N values. Our results indicate that bears in developed areas are not necessarily food conditioned and caution against management actions based on limited observations of bear behavior. Full article
(This article belongs to the Section Wildlife)
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<p>The study area consisted of Tate’s Hell State Forest (darker shaded area) and neighboring commercial timberlands. The towns mentioned in text are shown as are major highways and Apalachicola National Forest boundaries (lighter shaded area).</p>
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<p>The conceptual framework for assessing the relationship between food conditioning and bears grouped by behavior or movements and the results of stable isotope and linear discriminant analysis (LDA) analyses. The development of groups and subgroups were based on movements in black bears as determined by the percent impervious surface within individual 95% MCP fall home ranges or bear behavior reported when human-bear conflicts were reported. The dotted box highlights the training data for the LDA analysis.</p>
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<p>Stable isotope values (δ<sup>13</sup>C and δ<sup>15</sup>N) for bear hair samples. Isotope values for bears captured throughout Florida from 2015 to 2017 comprise the <span class="html-italic">anthropogenic</span> bears (■) sampling subgroup and bears captured in and around Tate’s Hell State Forest, Florida, USA from 2016–2017 comprise the <span class="html-italic">wild</span> bears (<span style="color:grey">■</span>) subgroup. Higher values indicate more human-sourced food. The original classification, plot (<b>A</b>), depicts classifications based on amount of impervious surface (wild bears) and observed conflict behavior (<span class="html-italic">anthropogenic</span> bears). The food conditioned classification plot (<b>B</b>) depicts the same individuals reclassified via a linear discriminant analysis with leave-one-out cross validation; six <span class="html-italic">anthropogenic</span> bears and two <span class="html-italic">wild</span> bears were reclassified to predict food conditioning FC (⬤) and not food conditioned NFC (<span style="color:grey">⬤</span>).</p>
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<p>Stable isotope values (δ<sup>13</sup>C and δ<sup>15</sup>N) of <span class="html-italic">management</span> bears predicted by linear discriminant analysis as food conditioned (FC; ◻) or not food conditioned (NFC; △) compared to the training data (reclassification from (<a href="#animals-13-00950-f003" class="html-fig">Figure 3</a>B) showing the training data that reclassified <span class="html-italic">anthropogenic</span> and <span class="html-italic">wild</span> bears as food conditioned FC (⬤) and not food conditioned NFC (<span style="color:grey">⬤</span>). Higher values indicate more human-sourced food.</p>
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<p>Stable isotope values (δ<sup>13</sup>C and δ<sup>15</sup>N) of <span class="html-italic">developed</span> bears predicted by linear discriminant analysis as food conditioned (FC; ◻) or not food conditioned (NFC; △) compared to the training data (reclassification from (<a href="#animals-13-00950-f003" class="html-fig">Figure 3</a>B) showing the training data that reclassified anthropogenic and wild bears as food conditioned FC (⬤) and not food conditioned NFC (<span style="color:grey">⬤</span>). Higher values indicate more human-sourced food.</p>
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12 pages, 1889 KiB  
Article
Access to Multiple Habitats Improves Welfare: A Case Study of Two Zoo-Housed Black Bears (Ursus americanus)
by Kelly Bruno, Cassidy Hubbard and Emily Lynch
J. Zool. Bot. Gard. 2023, 4(1), 87-98; https://doi.org/10.3390/jzbg4010010 - 31 Jan 2023
Cited by 3 | Viewed by 4844
Abstract
Using various forms of enrichment, animal care specialists encourage species-specific behaviors and discourage stereotypic behaviors. Within the zoo community, bears (Ursids spp.) are commonly housed, yet are prone to exhibiting stress-related behaviors. Here, we assess the effect of access to multiple habitats, [...] Read more.
Using various forms of enrichment, animal care specialists encourage species-specific behaviors and discourage stereotypic behaviors. Within the zoo community, bears (Ursids spp.) are commonly housed, yet are prone to exhibiting stress-related behaviors. Here, we assess the effect of access to multiple habitats, including areas of off guest view, on the welfare of two American black bears (U. americanus) housed at the North Carolina Zoo. In this study, we looked at two behaviors, pacing and foraging to represent negative and positive welfare indicators. We performed logistic regressions to model the effect of access on these behaviors. Because having an animal visible to guests is important to consider when creating management plans, we also explored the effect of access on the bears’ visibility. We found that full access reduced the likelihood of pacing by an average of 13% and increased the likelihood of foraging by an average of 5%. Access to multiple areas reduced the probability of visibility by 57% for one individual but did not impact visibility of the other bear. This case study suggests the value of access to zoo animal welfare and should incite future research aimed at exploring the effects of access on various behavioral outcomes. Full article
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<p>Map of black bear enclosure at the North Carolina Zoo.</p>
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<p>Predicted likelihood of pacing by access type. Error bars represent 95% standard error.</p>
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<p>Predicted likelihood of foraging by access. Error bars represent 95% standard error.</p>
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<p>Predicted likelihood of Luna’s visibility across different types of access. Error bars represent 95% standard error.</p>
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<p>Predicted likelihood of Nova’s visibility across different types of access. Error bars represent 95% standard error.</p>
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16 pages, 9157 KiB  
Article
Efficacy of Killing Large Carnivores to Enhance Moose Harvests: New Insights from a Long-Term View
by Sterling D. Miller, David K. Person and R. Terry Bowyer
Diversity 2022, 14(11), 939; https://doi.org/10.3390/d14110939 - 2 Nov 2022
Cited by 4 | Viewed by 6752
Abstract
We analyzed harvest data to test hypotheses that nearly 4 decades of effort to reduce abundance of brown bears (Ursus arctos), black bears (U. americanus) and gray wolves (Canis lupus) in an 60,542 km2 area in [...] Read more.
We analyzed harvest data to test hypotheses that nearly 4 decades of effort to reduce abundance of brown bears (Ursus arctos), black bears (U. americanus) and gray wolves (Canis lupus) in an 60,542 km2 area in south-central Alaska (Game Management Unit [GMU] 13) was positively correlated with moose (Alces alces) harvests in some time-lagged fashion. Predator-reduction efforts were progressively more aggressive over decades (both de facto and officially designated predator control) and did not have clear starting points which complicated our post hoc analyses. We documented no positive correlations (p > 0.05) between harvests of brown and black bears and subsequent moose harvests for any time lag. Moose harvest was negatively correlated with the previous years’ wolf harvest, but the relationship was weak (correlation = −0.33, p < 0.05). Consequently, we reject our hypotheses that harvest of predators was positively correlated with moose harvests. We also observed no differences in mean moose harvests during periods of officially designated wolf control (2005–2020) and a previous period (p > 0.50). We recommend that predator reductions designed to improve hunter harvests of moose be conducted within a research framework that will permit improved interpretations of results and the implementation of an adaptive-management approach to achieve management objectives. Full article
(This article belongs to the Special Issue Ecology, Diversity, Conservation and Management of Ungulates)
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<p>Game Management Unit (GMU) 13 (red outline), including subunits A, B, C, D, and E (grey lines are highways) in south-central Alaska, USA.</p>
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<p>Hunter harvests of moose and hunter and trapper harvests of wolves in Game Management Unit 13, in south-central Alaska, USA (moose = blue circles; wolves = red triangles). Our statistical analysis includes data from 1973 onward.</p>
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<p>Number of hunter kills of brown bears and black bears in Game Management Unit 13, south-central Alaska, USA, 1973–2019.</p>
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<p>Autocorrelation (A) and partial autocorrelation (B) functions for time lagged (1–5 years) for moose, wolf, brown bear, and black bear harvest data from GMU 13 south-central Alaska, USA, 1973–2020. Correlations (bars) extending beyond bracketing lines are significant (<span class="html-italic">p</span> ≤ 0.05). We only show lags up to 5 years because all significant correlations occurred within those years.</p>
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<p>Cross-correlation functions for moose harvest versus previous (1–5 year lag) for wolf, brown bear, black bear, and all predators combined in GMU 13 south-central Alaska, USA, 1973–2020. We only show lags up to 5 years because all significant correlations occurred within those years.</p>
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13 pages, 7078 KiB  
Article
The Persistence of Glyphosate in Vegetation One Year after Application
by Christopher B. Edge, Marika I. Brown, Shane Heartz, Dean Thompson, Len Ritter and Madhi Ramadoss
Forests 2021, 12(5), 601; https://doi.org/10.3390/f12050601 - 11 May 2021
Cited by 6 | Viewed by 3766
Abstract
Glyphosate-based herbicides are the most widely used herbicides in the world, including in Canadian forestry. In general, glyphosate-based herbicides are considered relatively non-toxic to wildlife species due, in part, to rapid breakdown of the chemical in the environment. However, recent work has shown [...] Read more.
Glyphosate-based herbicides are the most widely used herbicides in the world, including in Canadian forestry. In general, glyphosate-based herbicides are considered relatively non-toxic to wildlife species due, in part, to rapid breakdown of the chemical in the environment. However, recent work has shown that glyphosate can persist for at least one year after application at low concentrations leading to concern over the persistence of trace levels in the environment. Using two independent studies we characterize the short- (18 days) and long-term (1 year) persistence of glyphosate in vegetation which are commonly, but differentially, browsed by WhiteiTailed Deer (Odocoileus virginianus), Moose (Alces alces), and Black Bear (Ursus americanus), or used as traditional medicines by Indigenous people and compare the residues to exposure thresholds. In the short-term study, glyphosate concentrations within the application block exceeded the general and maximum residue level (MRL) for fresh fruit set by Health Canada (0.1 ppm) for up to 18 days after application. In the long-term study, glyphosate concentrations were above the MRL one week after application and below the MRL one month and one year after application. Under the assumptions that all vegetation contained glyphosate at the highest observed concentration, animals only consume vegetation from herbicide treated areas, and animals consume the physiological maximum level of vegetation daily, Moose, White-Tailed Deer, and Black Bears could exceed the Acceptable Daily Intake for glyphosate (0.3 mg/kg/day) for up to 18 days after application. Subsequently, given dissipation of residues in vegetative matrices as observed in this study, we consider it highly unlikely that the species considered herein could consume enough vegetation throughout their lives to pose a risk to their health. Overall, our two independent studies demonstrate that trace levels of glyphosate persist in vegetation for up to one year after application, however, observed concentrations are unlikely to pose risk to wildlife. We caution that operational practices as typically imposed in Canadian forestry are very important and effective in minimizing risk. Full article
(This article belongs to the Section Forest Ecology and Management)
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<p>(<b>A</b>) Schematic of sampling design for the long-term study, there were six replicate areas. (<b>B</b>) A map of the blocks used in the short-term study.</p>
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<p>Glyphosate concentrations (ppm) detected in 14 vegetation types one week, one month, and one year after application in two harvest blocks that received an aerial application of a glyphosate-based herbicide. The horizontal line represents the Maximum Residue Limit for fresh fruits and the general MRL for untested food set by Health Canada (0.1 ppm). Note that <span class="html-italic">Y</span>-axis is log scale.</p>
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<p>Worst case daily intake of glyphosate for four vegetation matrices (mg glyphosate/kg body weight/day). Calculations assume all vegetation contains the maximum observed concentration, animals only consume glyphosate treated vegetation, and animals consume the physiological maximum of food each day. The horizontal line is the Acceptable Daily Intake set by Health Canada (0.3 mg glyphosate/kg body weight/day). Note that <span class="html-italic">Y</span>-axis is log scale.</p>
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17 pages, 4748 KiB  
Article
Can a Remote Sensing Approach with Hyperspectral Data Provide Early Detection and Mapping of Spatial Patterns of Black Bear Bark Stripping in Coast Redwoods?
by Shayne Magstadt, David Gwenzi and Buddhika Madurapperuma
Forests 2021, 12(3), 378; https://doi.org/10.3390/f12030378 - 22 Mar 2021
Cited by 3 | Viewed by 2979
Abstract
The prevalence of black bear (Ursus americanus) bark stripping in commercial redwood (Sequoia sempervirens (D. Don) Endl.) timber stands has been increasing in recent years. This stripping is a threat to commercial timber production because of the deleterious effects on [...] Read more.
The prevalence of black bear (Ursus americanus) bark stripping in commercial redwood (Sequoia sempervirens (D. Don) Endl.) timber stands has been increasing in recent years. This stripping is a threat to commercial timber production because of the deleterious effects on redwood tree fitness. This study sought to unveil a remote sensing method to detect these damaged trees early and map their spatial patterns. By developing a timely monitoring method, forest timber companies can manipulate their timber harvesting routines to adapt to the consequences of the problem. We explored the utility of high spatial resolution UAV-collected hyperspectral imagery as a means for early detection of individual trees stripped by black bears. A hyperspectral sensor was used to capture ultra-high spatial and spectral information pertaining to redwood trees with no damage, those that have been recently attacked by bears, and those with old bear damage. This spectral information was assessed using the Jeffries-Matusita (JM) distance to determine regions along the electromagnetic spectrum that are useful for discerning these three-health classes. While we were able to distinguish healthy trees from trees with old damage, we were unable to distinguish healthy trees from recently damaged trees due to the inherent characteristics of redwood tree growth and the subtle spectral changes within individual tree crowns for the time period assessed. The results, however, showed that with further assessment, a time window may be identified that informs damage before trees completely lose value. Full article
(This article belongs to the Section Forest Inventory, Modeling and Remote Sensing)
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<p>The area of interest (AOI) located in Humboldt County in Northern California. The extent of the hyperspectral imagery is shown on the right totaling 4.85 ha and the individual trees used to train the models.</p>
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<p>Workflow of data analysis in this study.</p>
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<p>An example of fresh damage observed in the field: (<b>a</b>) A redwood tree completely girdled by a black bear; (<b>b</b>) A redwood tree with half of the bark removed from the trunk.</p>
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<p>An example of characteristics used to determine fresh damaged observed in the field: (<b>a</b>) A photo of bark from old damage (left) and fresh damage (right); (<b>b</b>) A tagged redwood tree with fresh damage.</p>
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<p>A boxplot visualization of the spectral signatures extracted from the three classes: healthy tree (<b>a</b>), fresh damage (<b>b</b>), and old damage (<b>c</b>). The minimum quartile (0th percentile), the maximum quartile (100th percentile), the first quartile (25th percentile), and the third quartile (75th percentile), and the median (50th percentile) are shown as well as outliers (circles) for each class at each hyperspectral band.</p>
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<p>The mean spectral signatures of each sample tree used as training: healthy class (<b>a</b>), fresh damage (<b>b</b>), and old damage (<b>c</b>).</p>
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<p>The Jeffries-Matusita distance measure for each of the 273 spectral bands (400 nm to 1000 nm): (<b>a</b>) JM measure between healthy class and freshly damage class; (<b>b</b>) JM measure between healthy class and old damage class.</p>
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<p>Comparing field observations (outline) to the tree health class prediction determined using the SVM classifier (pixel).</p>
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20 pages, 3137 KiB  
Article
Forecasting Seasonal Habitat Connectivity in a Developing Landscape
by Katherine A. Zeller, David W. Wattles, Javan M. Bauder and Stephen DeStefano
Land 2020, 9(7), 233; https://doi.org/10.3390/land9070233 - 18 Jul 2020
Cited by 10 | Viewed by 3694
Abstract
Connectivity and wildlife corridors are often key components to successful conservation and management plans. Connectivity for wildlife is typically modeled in a static environment that reflects a single snapshot in time. However, it has been shown that, when compared with dynamic connectivity models, [...] Read more.
Connectivity and wildlife corridors are often key components to successful conservation and management plans. Connectivity for wildlife is typically modeled in a static environment that reflects a single snapshot in time. However, it has been shown that, when compared with dynamic connectivity models, static models can underestimate connectivity and mask important population processes. Therefore, including dynamism in connectivity models is important if the goal is to predict functional connectivity. We incorporated four levels of dynamism (individual, daily, seasonal, and interannual) into an individual-based movement model for black bears (Ursus americanus) in Massachusetts, USA. We used future development projections to model movement into the year 2050. We summarized habitat connectivity over the 32-year simulation period as the number of simulated movement paths crossing each pixel in our study area. Our results predict black bears will further colonize the expanding part of their range in the state and move beyond this range towards the greater Boston metropolitan area. This information is useful to managers for predicting and addressing human–wildlife conflict and in targeting public education campaigns on bear awareness. Including dynamism in connectivity models can produce more realistic models and, when future projections are incorporated, can ensure the identification of areas that offer long-term functional connectivity for wildlife. Full article
(This article belongs to the Special Issue Dynamic Landscape Connectivity)
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<p>Black bear range in Massachusetts and distribution of start points for 3000 simulated individuals. In the western range, 2000 individuals were initiated, in the eastern range, 990, and in the expanding range, 10.</p>
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<p>Procedure for simulating one step for the black bear individual-based movement models (IBMMs). From a start point on the resistance surface, (<b>a</b>) we applied and took the inverse of the rawspread function [<a href="#B40-land-09-00233" class="html-bibr">40</a>] which calculates resistance distance from the start point. We then (<b>b</b>) applied the Pareto density function of the appropriate diel period and season to the resistance distance surface to create a movement probability kernel and transformed the kernel to sum to 1. We then (<b>c</b>) probabilistically sampled a destination (end) point on the movement probability kernel.</p>
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<p>Examples of empirical black bear paths (in black) and simulated black bear paths in the same area (in blue). The background map shows roads in white, water bodies in dark grey and conserved lands in green.</p>
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<p>Per-pixel sum of simulated black bear paths for (<b>a</b>) 2019, (<b>b</b>) 2030, (<b>c</b>) 2040, (<b>d</b>) 2050, and (<b>e</b>) all years (2019 to 2050). From west to east, the black polygons represent black bear range to the west of the Connecticut River, to the east of the river, and the expanding range. Yellow circles indicate areas with substantial future black bear use in their expanding range. The locations of the two larger and smaller circles are described further in the Results section.</p>
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<p>Resistance surfaces used in the individual based movement models. Insets provided to show detail. Figure adapted from Zeller et al., 2019.</p>
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<p>Histograms of empirical black bear step lengths with fitted Pareto distribution and parameters for each season/diel period. The shape of the Pareto distribution determines the shape of the tail of the distribution and the scale the spread.</p>
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14 pages, 1424 KiB  
Article
Behavior in Free-Living American Black Bear Dens: Parturition, Maternal Care, and Cub Behavior
by Lynn L. Rogers, Linda McColley, Janet Dalton, Jim Stroner, Douglas Hajicek, Adam Partin and Gordon M. Burghardt
Animals 2020, 10(7), 1123; https://doi.org/10.3390/ani10071123 - 1 Jul 2020
Cited by 5 | Viewed by 7368
Abstract
Denning behavior has long remained the least observed aspect of bear behavior. During 2010–2013, we used webcams, microphones, the internet, and 14,602 h of archived video to document the denning behaviors of two adult wild black bears (Ursus americanus) as they [...] Read more.
Denning behavior has long remained the least observed aspect of bear behavior. During 2010–2013, we used webcams, microphones, the internet, and 14,602 h of archived video to document the denning behaviors of two adult wild black bears (Ursus americanus) as they gave birth and cared for four litters through six winters in northeastern Minnesota. Observations included types of dens, labor, pre-parturient genital swelling, birthing positions, post-partum vocalizations, mothers removing amniotic tissues and warming newborn cubs in sub-freezing temperatures, frequency of nursing, cubs establishing nipple order, yearlings suckling, the ingestion of snow and icicles, the ingestion of foot pads, urination and defecation in latrine areas, toilet-licking, eye opening, reciprocal tongue-licking, play, rapid eye movement (REM) sleep and possible dreaming, and reactions to wildlife intruders. The use of this new method for observing natural bear dens allowed the identification of many behaviors undescribed for any species of wild bear in dens. We also discuss the need for future studies and how the depth and duration of black bear hibernation varies with body condition and geographic region. Full article
(This article belongs to the Section Wildlife)
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<p>(<b>A</b>). Lily’s burrow den on 4 December 2009. (<b>B</b>). Lily at den 24 March 2010. The white tube extending into the den contains the webcam installed on 8 January 2010. (<b>C</b>). Nine-month-old Hope at the root mound den on 25 October 2010, showing vegetation that she and three-year-old Lily had raked into it for bedding. (<b>D</b>). Four-year-old Lily and nine-month-old Faith in the deep rock den 12 November 2011. (<b>E</b>). Five-year-old Lily in the slash pile den on 10 September 2012. (<b>F</b>). Two-year-old Jewel showing the dirt mound she excavated to enlarge her burrow den of the previous year on 22 October 2011. (<b>G</b>). Two-year-old Jewel in her enlarged burrow den with the webcam installed on 7 January 2012. (<b>H</b>). The burrow den of three-year-old Jewel with its throw mound and webcam on 23 December 2012. It was used by Jewel and her yearlings Fern and Herbie in the winter of 2012–2013.</p>
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5 pages, 2987 KiB  
Case Report
Sertoli Cell Tumor (SCT) in a Captive Black Bear (Ursus americanus)
by Ahmed K. Elfadl, SunYoung Park, H M Arif Ullah, Soong-Hee Youn, Myung-Jin Chung, Ji-Yoon Son, Jae-Yeong Lee, Seoung-Woo Lee, A-Rang Lee, Su-Min Baek, Sul-Gi Jeon, Eun-Joo Lee, Il-Hwa Hong, Jin-Kyu Park and Kyu-Shik Jeong
Vet. Sci. 2019, 6(4), 77; https://doi.org/10.3390/vetsci6040077 - 26 Sep 2019
Cited by 5 | Viewed by 6014
Abstract
A black bear of 29-year-old (Ursus americanus) died unexpectedly in captivity without any gross lesions or clinical signs. We identified a firm, lobulated, yellowish tan, and well-circumscribed mass embedded inside the testicular tissue at the time of necropsy. The tumor sections [...] Read more.
A black bear of 29-year-old (Ursus americanus) died unexpectedly in captivity without any gross lesions or clinical signs. We identified a firm, lobulated, yellowish tan, and well-circumscribed mass embedded inside the testicular tissue at the time of necropsy. The tumor sections exhibited soft necrotic and hemorrhagic areas beneath its capsule. Histologically, the tumor comprised Sertoli cells arranged in tubules and solid sheets supported by prominent fibrous connective tissues. The Sertoli cells were positive for vimentin and ER-β expression, whereas it showed negative staining for inhibin-α, cytokeratin 19, and S-100. To the best of our knowledge, this is the rare case report of testicular Sertoli cell tumor in black bear. Full article
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<p>Cross section of the testicular tumor isolated from a black bear showing yellow, tan, and lobulated neoplasm, which is isolated from a nearby tissue by a fibrous capsule.</p>
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<p>Histopathological picture of Sertoli cell tumor isolated from the testicle of a black bear. (<b>A</b>) General overview of Sertoli cells arranging in a tubular pattern with an occluded lumen. H&amp;E staining. Bar = 200 µm. (<b>B</b>) Several tubules containing Sertoli cells merged together forming multiple large round masses of varied sizes (indicated by arrow). H&amp;E staining. Bar = 100 µm. (<b>C</b>) Spindle-shaped Sertoli cells showing dark nuclei and small amounts of cytoplasm, these cells formed a bridge across the inner sides of tubules. H&amp;E staining. Bar = 50 µm. (<b>D</b>) Well-differentiated Sertoli cells showing round-to-oval nuclei forming irregular shaped tubules (indicated by arrow). H&amp;E staining. Bar = 50 µm.</p>
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<p>Immunohistochemical properties of Sertoli cell tumor isolated from the testicle of a black bear. (<b>A</b>) All tumor cells showed very strong positive reaction to vimentin immunoglobulins. Bar = 100 µm. (<b>B</b>) Numerous Sertoli cells showed a strong positive reaction to ER-β. Bar = 100 µm.</p>
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10 pages, 1917 KiB  
Article
A Serosurvey of Multiple Pathogens in American Black Bears (Ursus americanus) in Pennsylvania, USA Indicates a Lack of Association with Sarcoptic Mange
by Kevin D. Niedringhaus, Justin D. Brown, Mark A. Ternent, Christopher A. Cleveland and Michael J. Yabsley
Vet. Sci. 2019, 6(4), 75; https://doi.org/10.3390/vetsci6040075 - 20 Sep 2019
Cited by 3 | Viewed by 7265
Abstract
Infectious diseases, particularly of wildlife, are intrinsically linked to human and domestic animal health. Reports of sarcoptic mange in black bears (Ursus americanus) are increasing in multiple states in the USA and while the reason is unknown, mange in other species [...] Read more.
Infectious diseases, particularly of wildlife, are intrinsically linked to human and domestic animal health. Reports of sarcoptic mange in black bears (Ursus americanus) are increasing in multiple states in the USA and while the reason is unknown, mange in other species has been associated with immunosuppression from multiple causes. Serum from bears across Pennsylvania were collected to determine the seroprevalence of five pathogens important for animal and/or human health: Canine distemper virus (CDV), canine parvovirus (CPV), canine adenovirus-1 (CAV), Toxoplasma gondii, and Trichinella sp. from bears with sarcoptic mange as well as bears that were clinically normal. Several of these pathogens, particularly canine distemper virus, are associated with immunosuppression and secondary infections in other hosts. In addition to describing the seroprevalence and relating these findings to data from other regions, statistics were performed to determine if antibodies to any of these pathogens were associated with mange in bears. The overall seroprevalence to these pathogens was as follows: CDV 7.1% (17/240), CPV 16% (15/94), CAV 6.9% (6/87), Toxoplasma gondii 64.9% (194/299), and Trichinella spiralis 3.2% (7/220). While there was no association between mange and antibodies to these pathogens, infection with one or more of these pathogens has implications for bears, other wildlife, domestic animal, and human health. Full article
(This article belongs to the Special Issue Zoonotic and Emerging Diseases at Human-Animal Interface)
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<p>Black bears with sarcoptic mange. (<b>A</b>) Young black bear with clinical sarcoptic mange, note severe emaciation and hair loss. (<b>B</b>) Collared sow with severe alopecia as a result of sarcoptic mange.</p>
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<p>Microscopic views of <span class="html-italic">S. scabiei</span>. (<b>A</b>) Severe hyperkeratosis in the epidermis associated with round mites (arrow). (<b>B</b>) High-magnification image of an adult, female <span class="html-italic">S. scabiei</span> mite; this species can be differentiated from other mites on bears by its round shape and short legs.</p>
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1730 KiB  
Article
An Evolutionarily Young Polar Bear (Ursus maritimus) Endogenous Retrovirus Identified from Next Generation Sequence Data
by Kyriakos Tsangaras, Jens Mayer, David E. Alquezar-Planas and Alex D. Greenwood
Viruses 2015, 7(11), 6089-6107; https://doi.org/10.3390/v7112927 - 24 Nov 2015
Cited by 7 | Viewed by 8026
Abstract
Transcriptome analysis of polar bear (Ursus maritimus) tissues identified sequences with similarity to Porcine Endogenous Retroviruses (PERV). Based on these sequences, four proviral copies and 15 solo long terminal repeats (LTRs) of a newly described endogenous retrovirus were characterized from the [...] Read more.
Transcriptome analysis of polar bear (Ursus maritimus) tissues identified sequences with similarity to Porcine Endogenous Retroviruses (PERV). Based on these sequences, four proviral copies and 15 solo long terminal repeats (LTRs) of a newly described endogenous retrovirus were characterized from the polar bear draft genome sequence. Closely related sequences were identified by PCR analysis of brown bear (Ursus arctos) and black bear (Ursus americanus) but were absent in non-Ursinae bear species. The virus was therefore designated UrsusERV. Two distinct groups of LTRs were observed including a recombinant ERV that contained one LTR belonging to each group indicating that genomic invasions by at least two UrsusERV variants have recently occurred. Age estimates based on proviral LTR divergence and conservation of integration sites among ursids suggest the viral group is only a few million years old. The youngest provirus was polar bear specific, had intact open reading frames (ORFs) and could potentially encode functional proteins. Phylogenetic analyses of UrsusERV consensus protein sequences suggest that it is part of a pig, gibbon and koala retrovirus clade. The young age estimates and lineage specificity of the virus suggests UrsusERV is a recent cross species transmission from an unknown reservoir and places the viral group among the youngest of ERVs identified in mammals. Full article
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<p>Multiple sequence alignments of the four UrsusERV proviral loci as identified in the polar bear genome sequence are shown. Proviral long terminal repeat (LTR), <span class="html-italic">gag</span>, <span class="html-italic">pro</span>, <span class="html-italic">pol</span> and <span class="html-italic">env</span> regions are indicated. Scaffold 1 and scaffold 162 proviral sequences harbor assembly gaps and lack proviral <span class="html-italic">pol</span> and <span class="html-italic">env</span> regions, indicated by horizontal black lines. The scaffold 200 provirus is structurally complete and could potentially produce functional proteins. Sequence differences relative to the consensus sequence are indicated by black vertical lines with the scaffold 7 provirus exhibiting the greatest overall divergence. Only the scaffold 200 provirus harbors a complete <span class="html-italic">env</span> gene that is partially present in scaffolds 162 and scaffold 7 and completely absent from scaffold 1.</p>
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<p>Multiple sequence alignments of UrsusERV LTRs, as identified in the polar bear genome sequence, are shown. LTR-A represents the first group of LTRs while LTR-B represents the second. Proviral 5′ LTRs and 3′ LTRs are indicated by numbers 1 and 2, respectively, in the sequence names. Solitary LTRs are indicated accordingly. Some identified LTRs only comprised sub-regions of the full-length LTR. Colored vertical lines represent nucleotide differences among the LTR sequences with respect to a majority rule consensus sequence (C: blue; G: yellow; A: red; T: green). Horizontal lines indicate gaps in the alignment while dark grey shaded regions indicate assembly gaps in some of the LTR sequences. The 3′ LTR in the scaffold 162 provirus is a recombinant between an LTR-A and LTR-B type LTR.</p>
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<p>Gel electrophoretic separation of PCR products amplified from five bear species. PCR products and a 100 bp DNA ladder were separated through a 1.5% agarose gel. As indicated by a PCR product of an expected size of 312 bp, UrsusERV sequences were present in the examined polar, brown and black bears but absent from spectacled bears and the giant panda. Relevant sized DNA marker bands are indicated on the left.</p>
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<p>Phylogenetic analysis of consensus and individual UrsusERV proviral proteins within the <span class="html-italic">Retroviridae</span>. Bayesian phylogenetic trees are shown for GAG, POL, and ENV proteins. Protease analysis due to limited variation among the sequences was included with the polymerase analysis. Posterior probabilities &gt;50% are shown. All sequences and analysis description are included in the material and methods section. UrsusERV (highlighted red) consensus and proviral sequences form a distinct clade that in all three analyses is closely related to PERV sequences.</p>
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<p>Maximum clade probability tree from mtDNA and nuclear DNA alignment display the Beast chronogram estimation. Clades age was estimated using fossil data points, with log normal distribution, and GTR model. Median divergences ages are shown above the blue horizontal bars that indicate the 95% highest posterior intervals of the estimation. Green arrow indicates the UrsusERV first insertion into the Ursinae clade that affected most likely all members of the clade. Red arrow indicates the second UrsusERV insertion into the brown bear clade, while the blue arrow represents scaffold 200 provirus that appears to be polar bear specific.</p>
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<p>Tanglegram illustration of the phylogenies of gammaretroviruses and their hosts. The host tree on the left was based on mtDNA <span class="html-italic">cytochrome b</span> gene sequences, and the retroviral tree on the right was based on the polymerase gene nucleotide sequence. Ursinae species that were positive for UrsuERV and the corresponding ERV sequences are shown in red. Phylogenetic trees were generated using maximum likelihood analysis as implemented in RAxML [<a href="#B54-viruses-07-02927" class="html-bibr">54</a>]. The bootstrap consensus trees illustrated were inferred from 500 replicates with the percentage bootstrap given next to each branch. Evolutionary phylogeny comparison of host <span class="html-italic">versus</span> retrovirus illustrates lack of co-evolution and cross species transmission events.</p>
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