Publications

Google Scholar: https://scholar.google.com/citations?user=HWI6NYIAAAAJ&hl=en&oi=sra 

Research Gate: https://www.researchgate.net/profile/Jesse_Lewis2 

Enloe, A., H.L. Bateman, J.A.G. Clark, J.S. Lewis, F.S. Albuquerque, and B. Hughes. Accepted. Beyond the front yard: investigating environmental drivers of residential snake removals across two scales in a desert city. Urban Ecosystems.

Kays, R., . . . J.S. Lewis, . . . and Arielle Parsons (~120 coauthors). Accepted. Climate, food, and humans predict communities of mammals in the United States. Diversity and Distributions.

Cocroft, A., J.S. Lewis, J. Clark,  J. Haight, S.B. Lerman, Z. Snyder, and S.J. Hall. 2024. Neighborhood ethnicity is related to mammal occupancy and activity across a desert metropolitan area. Ecosphere 15: e4902.

Fidino, M., H.A. Sander, J.S. Lewis, E.W. Lehrer, K. Rivera, M.H. Murray, H.C. Adams, A. Kase, A. Flores, T. Stankowich, C.J. Schell, C.M. Salsbury, A.T. Rohnke, M.J. Jordan, A.M. Green, A.R. Gramza, A.J. Zellmer, J. Williamson, T.D. Surasinghe, H. Storm, K. L. Sparks, T.J. Ryan, K.R. Remine, M.E. Pendergast, K.Mullen, D.E. Minier, C.R. Middaugh, A.L. Mertl, M.R. McClung, R.A. Long, R.N. Larson, M.T. Kohl, L.R. Harris, C.T. Hall, J.D. Haight, D. Drake, A.M. Davidge, A.O. Cheek, C.P. Bloch, E.G. Biro, W.J.B. Anthonysamy, J.L. Angstmann, M.L. Allen, S.A. Adalsteinsson, A.G. Short Gianotti, J.M. LaMontagne, T.A. Gelmi-Candusso, and S.B. Magle. 2024. Gentrification drives patterns of alpha and beta diversity in cities. PNAS 121: e2318596121.

Dwyer, J., M. Moore, and J.S. Lewis. Accepted. Habitat use and occupancy of bats across the gradient of urbanization and seasons. Ecosphere.

Hamilton, K., T. Bommarito, and J.S. Lewis. 2024. Spatial and temporal factors influencing wildlife use of overpass crossing structures and landscape siphons along a major canal. Biological Conservation 292: 110481.

Lewis, J.S., S.B. St. Clair, M. Fairweather, and E.S. Rubin. 2024. Fire severity and ungulate herbivory shape forest regeneration and recruitment after a large mixed-severity wildfire. Forest Ecology and Management 555: 121692.

Hamilton, K., T. Bommarito, and J.S. Lewis. 2024. Human activities influence mule deer use of overpasses across multiple scales. Journal of Wildlife Management 88: e22560.

Hess, S.C., K.C.B. Weiss, J.M. Custer, J.S. Lewis, S. Kraberger, and A. Varsani. 2024. Identification of small circular DNA viruses in coyote fecal samples from Arizona (USA). Archives of Virology 169:12.

Wolfson, D., Schlichting, P.E., R.K. Boughton, K.C. VerCauteren, R.S. Miller, and J.S. Lewis. 2023. Comparison of daily activity patterns using GPS telemetry and camera trap data to evaluate seasonal trends of a widespread mammal. Ecosphere 14: e4728.

Lewis, J.S. 2023. Impacts of human population on wildlife: a British Perspective. The Quarterly Review of Biology 8: 232-233 (Invited book review).

Haight, J.D., K.L. Larson, J.A. Brown, J.S. Lewis, and S.J. Hall. 2023. Social-ecological drivers of metropolitan residents’ comfort living with wildlife. Frontiers in Conservation Science 4: 1248238.

Haight, J.D., S.J. Hall, M. Fidino, S.A. Adalsteinsson, A.A. Ahlers, J. Angstmann, W.J B. Anthonysamy, E. Biro, M.K. Collins, B. Dugelby, T. Gallo, A.M. Green, L. Hartley, M.J. Jordan, C.A.M. Kay, E.W. Lehrer, R.A. Long, B. MacDougall, S.B. Magle, D.E. Minier,; C.Mowry, M. Murray, K. Nininger, M.E. Pendergast, K.R. Remine, T. Ryan, C. Salsbury, C.J. Schell, Ç.H. Șekercioğlu, C.J. Shier, K.C. Simon, C.C. St. Clair, T. Stankowich, C.J. Stevenson, L. Wayne, D. Will, J. Williamson, L. Wilson, A.J. Zellmer, and J.S. Lewis. 2023. Urbanization, climate, and species traits shape mammal communities from local to continental scales. Nature Ecology and Evolution 7: 1654-1666.

Schlichting, P.E., R. Boughton, W. Anderson, B. Wight, K. VerCauteren, R. Miller, and J.S. Lewis. 2022. Seasonal variation in space use and territoriality in an invasive large mammal (Sus scrofa). Scientific Reports 12: 4032.

Lewis, J.S., L. LeSueur, J. Oakleaf, and E.S. Rubin. 2022. Mixed-severity wildfire shapes habitat use of large herbivores and carnivores. Forest Ecology and Management 506: 119933.

O’Bryan, C.J., N.R. Patton, J. Hone, J.S. Lewis, D. Risch, V. Berdejo-Espinola, M.H. Holden, and E. McDonald-Madden. 2022. Invasive wild pigs (Sus scrofa) as a human-mediated source of soil carbon emissions: uncertainties and future directions. Global Change Biology 28: 1-3.

Kay, C.M., A.T. Rohnke, H. Sander, T. Stankowich, M. Fidino, M.H. Murray, J.S. Lewis, I. Taves, E. Lehrer A.J. Zellmer, C.J. Schell, S. Magle. 2022. Barriers to building wildlife-inclusive cities: insights from a joint summit of urban ecologists, urban planners, and landscape designers. People and Nature 4: 62-70.

O’Bryan, C.J., V. Berdefo, J. Hone, J.S. Lewis, N.R. Patton, D. Risch, M.H. Holden, and E. McDonald-Madden. 2022. Unrecognized threat to global soil carbon by a widespread invasive species. Global Change Biology 28: 877-882.

Magle, S., M. Fidino, H. Sander, A.T. Rohnke, K.L. Larson, T. Gallo, C.A.M. Kay, E.W. Lehrer, M.H. Murray, S.A. Adalsteinsson, A.A. Ahlers, W.J.B. Anthonysamy, A.R. Gramza, A.M. Green, M.J. Jordan, J.S Lewis, R.A. Long, B. MacDougall, M.E. Pendergast, K. Remine, K.C. Simon, C.C. St. Clair, T. Stankowich, A.J. Zellmer, C.J. Schell. 2021. Wealth and urbanization shape mammalian communities across North America. Global Change Biology 27: 5446-5459.

Bates, A.E., R.B. Primack, PAN-Environment Working Group (. . . J.S. Lewis, J. Haight, . . . 350 co-authors), and C.M. Duarte. 2021. Global COVID-19 lockdown highlights humans as both threats and custodians of the environment. Biological Conservation 263: 109175.

O’Bryan, C.J., V. Berdefo, J. Hone, J.S. Lewis, N.R. Patton, D. Risch, M.H. Holden, and E. McDonald-Madden. 2021. Unrecognized threat to global soil carbon by a widespread invasive species. Global Change Biology DOI: 10.1111/gcb.15769.

Suraci, J.P., K.M. Gaynor, M.L. Allen, P. Alexander, J.S. Brashares, S. Cendejas-Zarelli, K. Crooks, L.M. Elbroch, T. Forester, A.M. Green, J. Haight, N.C. Harris, M. Hebblewhite, F. Isbell, B. Johnston, R. Kays, P.E. Lendrum, J.S. Lewis, A. McInturff, W. McShea, T.W. Murphy, M.S. Palmer, A. Parsons, M.A. Parson, M.E. Pendergast, C. Pekins, L. Prugh, K.A. Sager-Fradkin, S. Schuttler, C.H. Sekercioglu, B. Shepherd, L. Whipple, J. Whittington, G. Wittemyer, and C.C. Wilmers. 2021. Disturbance type and species life history predict mammal response to humans. Global Change Biology DOI: 10.1111/gcb.15650.

Lewis, J.S., S. Spaulding, H. Swanson, W. Keeley, A.R. Gramza, S. VandeWoude, and K.R. Crooks. 2021. Human activity influences wildlife populations and activity patterns: implications for spatial and temporal refuges. Ecosphere 12: e03487.

Teton, B.S., J.S. Lewis, W.T. Christina, M. White, and H. Young. 2020. Using natural pelt patterns to estimate population abundance with mark-resight models. Wildlife Society Bulletin 44: 695-704.

Tabak, M.A, M.S. Norouzzadeh, D.W. Wolfson, E.J. Newton, R.K. Boughton, K.C. VerCauteren, J.S. Ivan, E.A. Odell, E.S. Newkirk, R.K. Brook, R.Y. Conrey, A.J. Davis, J.S. Lewis, D.P. Walsh, J.C. Beasley, J. Clune, and R.S. Miller. 2020. Improving the accessibility and transferability of machine learning algorithms for identification of animals in camera trap images: MLWIC2. Ecology and Evolution 10:10374–10383.

Zellmer, A.J., E. Wood, T. Surasinghe, B.J. Putman, G. Pauly, S. Magle, J.S. Lewis, C. Kay, and M. Fidino. 2020. What can we learn from wildlife sightings during the COVID-19 global shutdown? Ecosphere 11: e03215.

Schlichting, P.E., J.C. Beasley, R.K. Boughton, A.J. Davis, K.M. Pepin, M.P. Glow, R.S. Miller, K.C. VerCauteren, and J.S. Lewis. 2020. A rapid population assessment method for wild pigs using baited camera sites. Wildlife Society Bulletin 44: 372-382.

Lewis, J.S., K. VerCauteren, R. Denkhaus, and J. Mayer. 2020. Wild pig populations along the urban gradient. Book Chapter, in Invasive Wild Pigs in North America, edited by K. VerCauteren, J.C. Beasley, S.S. Ditchkoff, J.J. Mayer, G.J. Roloff, and B.K. Strickland. CRC Press, Boca Raton, FL, USA.

Wilber, M.Q., S.M. Chinn, J. C. Beasely, R. Boughton, R.K. Brook, S.S. Ditchkoff, J.W. Fischer, S.B. Hartley, L.K. Holmstrom, J.C. Kilgo, J.S. Lewis, R.S. Miller, N.P. Snow, K.C. VerCauteren, C.T. Webb, and K.M. Pepin. 2020. Predicting functional responses in agro-ecosystems from animal movement data to improve management of invasive species. Ecological Applications 30: e02015

Windell, R.M., J.S. Lewis, A.R. Gramza, and K.R. Crooks. 2019. Carnivore carrying behavior as documented with wildlife camera traps. Western North American Naturalist: 79: 471-480  

Lewis, J.S., J.L. Corn, J.J. Mayer, T.R. Jordan, M.L. Farnsworth, C.L. Burdett, K.C. VerCauteren, S.J. Sweeney, R.S. Miller. 2019. Historical, current, and potential population size estimates of invasive wild pigs (Sus scrofa) in the United States. Biological Invasions 21: 2373-2384. 

Tabak M.A, M.S. Norouzzadeh, D.W. Wolfson, S.J. Sweeney, K.C. VerCauteren, N.P. Snow, J.M. Halseth, P.A. Di Salvo, J.S. Lewis, M.D. White, B. Teton, J.C. Beasley, P.E. Schlichting, R.K. Boughton, B. Wight, E.S. Newkirk, J.S. Ivan, E.A. Odell, R.K. Brook, P.M. Lukacs, A.K. Moeller, E.G. Mandeville, J. Clune, and R.S. Miller. 2019. Machine learning to classify animal species in camera trap images: Applications in ecology. Methods in Ecology and Evolution. DOI: 10.1111/2041-210X.13120

White, M., K. Kauffman, J.S. Lewis, R. Miller. 2018. Wild pigs breach farm fence through harvest time in southern San Joaquin Valley. California Agriculture 72: 120 – 126.

Lewis, J.S., K. Logan, M. Alldredge, S. VandeWoude, and K.R. Crooks. 2017. The effects of demographic, social, and environmental characteristics on pathogen exposure in wild felids across a gradient of urbanization. PLoS ONE 12: e0187035

Kellner, A., S. Carver, A. Gramza, J.S. Lewis, S. VandeWoude, and K.R. Crooks. 2017. Outdoor recreation at the wildland-urban interface: examining human activity patterns and compliance with dog management policies. Natural Areas Journal 37: 515 – 529.

Lewis, J.S., M. Farnsworth, C. Burdett, D. Theobald, M. Gray, and R. Miller. 2017. Biotic and abiotic factors predicting the global distribution and population density of an invasive large mammal. Nature: Scientific Reports 7: DOI: 10.1038/srep44152

Lewis, J.S., D. Theobald, S. VandeWoude, and K.R. Crooks. 2017. Contact networks reveal potential for interspecific interactions of sympatric wild felids driven by space use. Ecosphere 8: Article e01707

Davis, A.J., M.B. Hooten, R.S. Miller, M.L. Farnsworth, J.S. Lewis, M. Moxcey, and K.M. Pepin. 2016. Inferring invasive species abundance using removal data from management actions. Ecological Applications 26: 2339-2346.

Lewis, J.S., L. Bailey, S. VandeWoude, and K.R. Crooks.  2015. Interspecific interactions between wild felids vary across scales and levels of urbanization. Ecology and Evolution 5: 5946-5961.  

Carver, S, S.N. Bevins, M.R. Lappin, E.E. Boydston, L.M. Lyren, M.W. Alldredge, K.A. Logan, L.L. Sweanor, S.P.D. Riley, L.E. Klein Serieys, R.N. Fisher, T.W. Vickers, W.M. Boyce, R. McBride, M.C. Cunningham, M. Jennings, J.S. Lewis, T. Lunn, K.R. Crooks, S. VandeWoude.  2015. Pathogen exposure varies widely among sympatric populations of wild and domestic felids across the United States. Ecological Applications 26: 367-381.

Lewis, J.S., K.A. Logan, M. Alldredge, L. Bailey, S. VandeWoude, and K.R. Crooks.  2015. The effects of urbanization on population density, occupancy, and detection probability of wild felids. Ecological Applications 25: 1880-1895.

Lewis, J.S.  2014. The effects of urbanization on felid populations, interactions, and pathogen dynamics, Dissertation, Colorado State University, Fort Collins.

Cushman, S.A., J.S. Lewis, E.L. Landguth. 2014. Why did the bear cross the road? Comparing the performance of multiple resistance surfaces and connectivity modeling methods. Diversity 6: 844-854.

Shannon, G, J.S. Lewis, B.D. Gerber. 2014. Recommended survey designs for occupancy modelling using motion-activated cameras: insights from empirical wildlife data. PeerJ 2:e532; DOI 10.7717/peerj.532.

Troyer, R.M., J.A. Beatty, K.R. Stutzman-Rodriguez, S. Carver, C.C. Lozano, J.S. Lee, M.R. Lappin, S.P.D. Riley, L.E.K. Serieys, K.A. Logan, L.L. Sweanor, W.M. Boyce, T.W. Vickers, R. McBride, K.R. Crooks, J.S. Lewis, M.W. Cunningham, J. Rovnak, S.L. Quackenbush, S. VaneWoude. 2014. Novel gammaherpesviruses in North American domestic cats, bobcats and pumas: identification, prevalence risk factors.  Journal of Virology doi:10.1128/JVI.03405-13.  

Cushman, S.A., J.S. Lewis, E.L. Landguth. 2013. Evaluating the intersection of a regional wildlife connectivity network with highways. Movement Ecology 1:12.

Lagana, D.M., J.S. Lee, J.S. Lewis, S.N. Bevins, S. Carver, L.L. Sweanor, R. McBride, C. McBride, K.R. Crooks, and S. VandeWoude. 2013. Characterization of regionally associated feline immunodeficiency virus (FIV) in bobcats (Lynx rufus). Journal of Wildlife Diseases 49: 718-722. 

Lewis, J.S., K.R. Crooks, L.L. Bailey, L.L. Sweanor, B. Dunne, S. VandeWoude, K.A. Logan.  2011. Conceptual framework for estimating mountain lion density with motion-activated cameras. Proceedings of the 10th Mountain Lion Workshop 10: 131-138.

Lewis, J.S. and J.L. Rachlow. 2011. Activity patterns of black bears related to sex, season, and daily movement rates. Western North American Naturalist 71: 388-395.

Lewis, J.S., J.L. Rachlow, J.S. Horne, E.O. Garton, W.L. Wakkinen, J. Hayden, and P. Zager. 2011. Identifying habitat characteristics to predict highway crossing areas for black bears in a human-modified landscape. Landscape and Urban Planning 101: 99-107.       

Cushman, S.A. and J.S. Lewis. 2010. Movement behavior explains genetic differentiation in American black bears. Landscape Ecology 25: 1613-1625.

Lewis, J.S.  2007. The effects of human influences on black bear habitat selection and movement patterns within a highway corridor, Thesis, University of Idaho, Moscow.

Horne, J.S., E.O. Garton, S.M. Krone, and J.S. Lewis. 2007. Analyzing animal movements using Brownian bridges. Ecology 88: 2354-2363.

Lewis, J.S., J.L. Rachlow, E.O. Garton, and L.A. Vierling. 2007. Effects of habitat on GPS collar performance: using data screening to reduce location error. Journal of Applied Ecology 44: 663-671.