@article{brown_chen_ivanova_leekitcharoenphon_parsons_niedermeyer_gould_strules_mesa-cruz_kelly_et al._2023, title={Draft Genome Sequences of 158 Listeria monocytogenes Strains Isolated from Black Bears (Ursus americanus) in the United States}, volume={12}, ISSN={2576-098X}, url={http://dx.doi.org/10.1128/mra.00248-23}, DOI={10.1128/mra.00248-23}, abstractNote={
            Listeria monocytogenes
            is responsible for severe foodborne disease and major economic losses, but its potential reservoirs in natural ecosystems remain poorly understood. Here, we report the draft genome sequences of 158
            L. monocytogenes
            strains isolated from black bears (
            Ursus americanus
            ) in the southeastern United States between 2014 and 2017.
          }, number={7}, journal={Microbiology Resource Announcements}, publisher={American Society for Microbiology}, author={Brown, Phillip and Chen, Yi and Ivanova, Mirena and Leekitcharoenphon, Pimlapas and Parsons, Cameron and Niedermeyer, Jeffrey and Gould, Nicholas and Strules, Jennifer and Mesa-Cruz, J. Bernardo and Kelly, Marcella J. and et al.}, editor={Rasko, DavidEditor}, year={2023}, month={Jul} }
 @article{puckett_davis_harper_wakamatsu_battu_belant_beyer_carpenter_crupi_davidson_et al._2023, title={Genetic architecture and evolution of color variation in American black bears}, volume={33}, ISSN={0960-9822}, url={http://dx.doi.org/10.1016/j.cub.2022.11.042}, DOI={10.1016/j.cub.2022.11.042}, abstractNote={<h2>Summary</h2> Color variation is a frequent evolutionary substrate for camouflage in small mammals, but the underlying genetics and evolutionary forces that drive color variation in natural populations of large mammals are mostly unexplained. The American black bear, <i>Ursus americanus</i> (<i>U. americanus</i>), exhibits a range of colors including the cinnamon morph, which has a similar color to the brown bear, <i>U. arctos</i>, and is found at high frequency in the American southwest. Reflectance and chemical melanin measurements showed little distinction between <i>U. arctos</i> and cinnamon <i>U. americanus</i> individuals. We used a genome-wide association for hair color as a quantitative trait in 151 <i>U. americanus</i> individuals and identified a single major locus (p < 10<sup>−13</sup>). Additional genomic and functional studies identified a missense alteration (R153C) in <i>Tyrosinase-related protein 1</i> (<i>TYRP1</i>) that likely affects binding of the zinc cofactor, impairs protein localization, and results in decreased pigment production. Population genetic analyses and demographic modeling indicated that the R153C variant arose 9.36 kya in a southwestern population where it likely provided a selective advantage, spreading both northwards and eastwards by gene flow. A different <i>TYRP1</i> allele, R114C, contributes to the characteristic brown color of <i>U. arctos</i> but is not fixed across the range.}, number={1}, journal={Current Biology}, publisher={Elsevier BV}, author={Puckett, Emily E. and Davis, Isis S. and Harper, Dawn C. and Wakamatsu, Kazumasa and Battu, Gopal and Belant, Jerrold L. and Beyer, Dean E., Jr. and Carpenter, Colin and Crupi, Anthony P. and Davidson, Maria and et al.}, year={2023}, month={Jan}, pages={86–97.e10} }
 @article{brown_hernandez_parsons_chen_gould_deperno_niedermeyer_kathariou_2023, title={Tetracycline resistance in Listeria monocytogenes and L. innocua from wild black bears (Ursus americanus) in the United States is mediated by novel transposable elements}, volume={89}, ISSN={["1098-5336"]}, url={https://doi.org/10.1128/aem.01205-23}, DOI={10.1128/aem.01205-23}, abstractNote={ABSTRACT}, number={11}, journal={Environmental Microbiology}, author={Brown, Phillip and Hernandez, Kevin and Parsons, Cameron and Chen, Yi and Gould, Nicholas and DePerno, Christopher S. and Niedermeyer, Jeffrey and Kathariou, Sophia}, editor={Dozois, Charles M.Editor}, year={2023}, month={Nov} }
 @article{gould_powell_olfenbuttel_deperno_2021, title={Growth and reproduction by young urban and rural black bears}, volume={102}, ISSN={0022-2372 1545-1542}, url={http://dx.doi.org/10.1093/jmammal/gyab066}, DOI={10.1093/jmammal/gyab066}, abstractNote={Abstract}, number={4}, journal={Journal of Mammalogy}, publisher={Oxford University Press (OUP)}, author={Gould, Nicholas P and Powell, Roger and Olfenbuttel, Colleen and DePerno, Christopher S}, editor={Hopkins, JackEditor}, year={2021}, month={Jul}, pages={1165–1173} }
 @article{joslyn_charles_deperno_gould_nowak_praggastis_purvine_robinson_strules_whitney_2020, title={A Sheaf Theoretical Approach to Uncertainty Quantification of Heterogeneous Geolocation Information}, volume={20}, ISSN={1424-8220}, url={http://dx.doi.org/10.3390/s20123418}, DOI={10.3390/s20123418}, abstractNote={Integration of multiple, heterogeneous sensors is a challenging problem across a range of applications. Prominent among these are multi-target tracking, where one must combine observations from different sensor types in a meaningful and efficient way to track multiple targets. Because different sensors have differing error models, we seek a theoretically justified quantification of the agreement among ensembles of sensors, both overall for a sensor collection, and also at a fine-grained level specifying pairwise and multi-way interactions among sensors. We demonstrate that the theory of mathematical sheaves provides a unified answer to this need, supporting both quantitative and qualitative data. Furthermore, the theory provides algorithms to globalize data across the network of deployed sensors, and to diagnose issues when the data do not globalize cleanly. We demonstrate and illustrate the utility of sheaf-based tracking models based on experimental data of a wild population of black bears in Asheville, North Carolina. A measurement model involving four sensors deployed among the bears and the team of scientists charged with tracking their location is deployed. This provides a sheaf-based integration model which is small enough to fully interpret, but of sufficient complexity to demonstrate the sheaf’s ability to recover a holistic picture of the locations and behaviors of both individual bears and the bear-human tracking system. A statistical approach was developed in parallel for comparison, a dynamic linear model which was estimated using a Kalman filter. This approach also recovered bear and human locations and sensor accuracies. When the observations are normalized into a common coordinate system, the structure of the dynamic linear observation model recapitulates the structure of the sheaf model, demonstrating the canonicity of the sheaf-based approach. However, when the observations are not so normalized, the sheaf model still remains valid.}, number={12}, journal={Sensors}, publisher={MDPI AG}, author={Joslyn, Cliff A. and Charles, Lauren and DePerno, Chris and Gould, Nicholas and Nowak, Kathleen and Praggastis, Brenda and Purvine, Emilie and Robinson, Michael and Strules, Jennifer and Whitney, Paul}, year={2020}, month={Jun}, pages={3418} }
 @article{parsons_niedermeyer_gould_brown_strules_parsons_bernardo mesa‐cruz_kelly_hooker_chamberlain_et al._2020, title={Listeria monocytogenes
            at the human–wildlife interface: black bears (
            Ursus americanus
            ) as potential vehicles for
            Listeria}, volume={13}, ISBN={1751-7915}, ISSN={1751-7915 1751-7915}, url={http://dx.doi.org/10.1111/1751-7915.13509}, DOI={10.1111/1751-7915.13509}, abstractNote={Summary}, number={3}, journal={Microbial Biotechnology}, publisher={Wiley}, author={Parsons, Cameron and Niedermeyer, Jeff and Gould, Nicholas and Brown, Phillip and Strules, Jennifer and Parsons, Arielle W. and Bernardo Mesa‐Cruz, J. and Kelly, Marcella J. and Hooker, Michael J. and Chamberlain, Michael J. and et al.}, editor={Brown, PhillipEditor}, year={2020}, month={May}, pages={706–721} }
 @article{westmoreland_stoskopf_sheppard_deperno_gould_olfenbuttel_maggi_2019, title={Detection and Prevalence of Babesia spp. in American Black Bears (Ursus americanus) from Eastern and Western North Carolina, USA}, volume={55}, ISSN={0090-3558}, url={http://dx.doi.org/10.7589/2018-06-164}, DOI={10.7589/2018-06-164}, abstractNote={Blood samples collected from American black bears ( Ursus americanus) in eastern and western North Carolina, US, were analyzed for piroplasms. Piroplasmids were detected in 17% (23/132) of the animals surveyed. We detected a Babesia spp. previously identified in North American raccoons ( Procyon lotor) and a maned wolf ( Chrysocyon brachyurus); prevalence was 22% (14/64) and 13% (9/68) in the mountain and coastal black bear populations, respectively. The presence of the same Babesia species in black bears, raccoons, and a maned wolf suggests piroplasms may not be host specific.}, number={3}, journal={Journal of Wildlife Diseases}, publisher={Wildlife Disease Association}, author={Westmoreland, Lori S. H. and Stoskopf, Michael K. and Sheppard, Erica and DePerno, Christopher S. and Gould, Nicholas P. and Olfenbuttel, Colleen and Maggi, Ricardo G.}, year={2019}, month={Jul}, pages={678} }
 @article{sasmal_gould_schuler_chang_thachil_strules_olfenbuttel_datta_deperno_2019, title={LEPTOSPIROSIS IN URBAN AND SUBURBAN AMERICAN BLACK BEARS (URSUS AMERICANUS) IN WESTERN NORTH CAROLINA, USA}, volume={55}, ISSN={["1943-3700"]}, DOI={10.7589/2017-10-263}, abstractNote={Abstract: American black bear (Ursus americanus) populations in North Carolina, US have recovered significantly in recent decades and now occupy much of western North Carolina, including urbansuburban areas. We used the black bear as a potential sentinel for leptospirosis, a bacterial zoonotic disease caused by Leptospira spp., which is maintained by domestic and wild mammals. We determined whether Leptospira spp. were present across a gradient of housing densities in the urban and suburban black bear population in and around Asheville, North Carolina using serologic and molecular surveys. We collected blood from captured black bears (n=94) and kidneys and bladders from carcasses (n=19). We tested a total of 96 (47 females, 47 males, and 2 unknown) serum samples by microscopic agglutination test (MAT) and had positive results (titer .1:100) for L. kirschneri serovar Grippotyphosa (L. Grippotyphosa) in 4 females (8%) and 5 males (10%). No other serovars showed elevated titers in MAT. We tested a total of 125 samples using PCR (n=96 serum, n=20 kidney, and n=9 bladders) and obtained positive results from one serum (1%), one kidney (5%), and one bladder (11%). The presence of Leptospira spp. in black bears occupying an urban and suburban landscape may indicate a more extensive occurrence of the bacteria among animals in the study region because black bears are the top carnivore in that ecosystem. Potential threats of widespread contamination during natural events such as flood or drought must be considered.}, number={1}, journal={JOURNAL OF WILDLIFE DISEASES}, author={Sasmal, Indrani and Gould, Nicholas P. and Schuler, Krysten L. and Chang, Yung-Fu and Thachil, Anil and Strules, Jennifer and Olfenbuttel, Colleen and Datta, Shubham and DePerno, Christopher S.}, year={2019}, month={Jan}, pages={74–83} }
 @article{funk_lovich_hohenlohe_hofman_morrison_sillett_ghalambor_maldonado_rick_day_et al._2016, title={Adaptive divergence despite strong genetic drift: genomic analysis of the evolutionary mechanisms causing genetic differentiation in the island fox (Urocyon littoralis)}, volume={25}, ISSN={["1365-294X"]}, DOI={10.1111/mec.13605}, abstractNote={Abstract}, number={10}, journal={MOLECULAR ECOLOGY}, author={Funk, W. Chris and Lovich, Robert E. and Hohenlohe, Paul A. and Hofman, Courtney A. and Morrison, Scott A. and Sillett, T. Scott and Ghalambor, Cameron K. and Maldonado, Jesus E. and Rick, Torben C. and Day, Mitch D. and et al.}, year={2016}, month={May}, pages={2176–2194} }