Publications

Peer-Reviewed Manuscripts, Book Chapters, and Proceedings (Team Members in Bold)

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46. Burkholder, E., J. Stephenson, S. Hegg, D. Gustine, T. Robinson, and J. Holbrook. In Revision. Anthropogenic food in a national park: How does it influence the trophic ecology of Rocky Mountain red fox? Journal of Mammalogy. 

45. Smith, A., J. Squires, N. Bjornlie, and J. Holbrook. In Press. Divergent or convergent: How do forest carnivores use time in the Greater Yellowstone Ecosystem? Journal of Mammalogy. 

44. Paolini, K., M. Schwartz, M. Friggins, S. Cushman, J. Weckworth, and J. Holbrook. 2023. A review of population and landscape level dynamics associated with pneumonia outbreaks in bighorn sheep with impacts for land management. Conservation Science and Practice:e12956. (pdf) 

43. Olson, L., J. Crotteau, S. Fox, G. Hanvey, J. Holbrook, S. Jackson, and J. Squires. 2023. Effects of compound disturbance on Canada lynx and snowshoe hare: wildfire and forest management influence timing and intensity of use. Forest Ecology and Management 530:120757. (pdf) 

42. Brunet, M., K. Moneith, K. Huggler, D. Thompson, P. Burke, M. Zornes, P. Lionberger, M. Valdez, and J. Holbrook. 2023. Spatiotemporal predictions of the alternative prey hypothesis: predator habitat use during decreasing prey abundance. Ecosphere 14:e4370. (pdf)

41. Young, J., Butler, A., J. Holbrook, H. Shamon, and R. Lonsinger.  To be published in 2023.  Chapter 16: Mesocarnivores of Western Landscapes. In Rangeland Wildlife Ecology and Conservation.  L. McNew, J. Beck, and D. Dahlgren (Editors). Springer. 

40. Squires, J., J. Ivan, L. Olson, K. Paolini, L. Olson, G. Jones, and J. Holbrook. 2023. Keystone structures maintain forest function for Canada lynx after large-scale spruce beetle outbreak. Environmental Research: Ecology 2:011001. (pdf)

39. Sergeyev, M., J. Holbrook, J. Lombardi, M. Tewes, and T. Campbell. 2022. Behaviorally mediated coexistence of ocelots, bobcats and coyotes using Hidden Markov models. Oikos 2022: e09480. (pdf)  

38. Veals, A., J. Holbrook, M. Cherry, T. Campbell, J. Young Jr., and M. Tewes. 2022. Landscape connectivity for an endangered carnivore: habitat conservation and road mitigation for ocelots in the US. Landscape Ecology. (pdf) 

37. Veals, A., J. Holbrook, A. Blackburn, C. Anderson, R. DeYoung, T. Campbell, J. Young Jr., and M. Tewes. 2022. Multiscale habitat relationships of a habitat specialist over time: the case of ocelots in Texas from 1982 to 2017. Ecosphere 2022: e4204. (pdf) 

36. Smith, A., J. Vogeler, N. Bjornlie, J. Squires, N. Swayze, and J. Holbrook. 2022. Spaceborne LiDAR and animal-environment relationships: An assessment for forest carnivores and their prey in the Greater Yellowstone Ecosystem. Forest Ecology and Management 520: 120343. (pdf)

35. Huggler, K., J. Holbrook, M. Hayes, P. Burke, M. Zornes, D. Thompson, J. Clapp, P. Lionberger, M. Valdez, and K. Monteith. 2022. Risky business: how an herbivore navigates spatiotemporal aspects of risk from competitors and predators. Ecological Applications 2022: e2648. (pdf)

34. Clapp, J., C. Atkinson, M. Brunet, P. Burke, L. Ellsbury, Z. Gregory, R. Kindermann, S. Ryder, D. Thompson, and J. Holbrook. 2022. Multi-model application informs prey composition of mountain lions Puma concolor. Wildlife Biology 2022: e01035. (pdf)

33. Brunet, M., K. Moneith, K. Huggler, J. Clapp, D. Thompson, P. Burke, M. Zornes, P. Lionberger, M. Valdez, and J. Holbrook. 2022. Cats and dogs: A mesopredator navigating risk and reward provisioned by an apex predator. Ecology and Evolution 12: e8641. (pdf)

32. Andersen, M., D. Bennett, and J. Holbrook. 2021. Burrow webs: Clawing the surface of interactions with burrows excavated by American badgers. Ecology and Evolution 11: 11559-11568. (pdf)

31. Vierling, K., J. Holbrook, J. Aycrigg, T. Cohn, and L. Svancara. 2021. Improving communication between landscape ecologists and managers: Challenges and opportunities. In Wildlife Management and Landscapes: Principles and Applications. W. Porter, C. Parent, R. Stewart, and D. Williams (Editors). John Hopkins University Press. (link to Amazon)

30. Olson, L., N. Bjornlie, G. Hanvey, J. Holbrook, J. Ivan, S. Jackson, B. Kertson, T. King, M. Lucid, D. Murray, R. Naney, J. Rohrer, A. Scully, D. Thornton, Z. Walker, and J. Squires. 2021. Improved prediction of Canada lynx distribution through regional model transferability and data efficiency. Ecology and Evolution 11: 1667-1690. (pdf)

29. Clapp, J., J. Holbrook, and D. Thompson. 2021. GPSeqClus: An R package for sequential clustering of animal location data for model building, model application and field site investigations. Methods in Ecology and Evolution 12: 787-793. (pdf)

28. Paolini, K., M. Modlin, A. Suazo, D. Pilliod, R. Arkle, K. Vierling, and J. Holbrook. 2020. Harvester ant seed removal in an invaded sagebrush ecosystem: Implications for restoration. Ecology and Evolution 10: 13731-13741. (pdf)

27. Squires, J., J. Holbrook, L. Olson, J. Ivan, R. Ghormley, and R. Lawrence. 2020. A specialized forest carnivore navigates landscape-level disturbance: Canada lynx in spruce-beetle impacted forests. Forest Ecology and Management 475: 118400. (pdf)

26. Heinemeyer, K., J. Squires, M. Hebblewhite, J. Smith, J. Holbrook, and J. Copeland. 2019. Wolverines in winter: Indirect habitat loss and functional responses to backcountry recreation. Ecosphere 10:e02611. (pdf)

25. Holbrook, J., J. Squires, B. Bollenbacher, R. Graham, L. Olson, G. Hanvey, S. Jackson, R. Lawrence, S. Savage. 2019. Management of forests and forest carnivores: relating landscape mosaics to habitat quality of Canada lynx at their range periphery. Forest Ecology and Management 437:411-425. (pdf)

24. Holbrook, J., L. Olson, N. DeCesare, M. Hebblewhite, J. Squires, and R. Steenweg. 2019. Functional responses in habitat selection: clarifying hypotheses and interpretations. Ecological Applications 29:e01852. (pdf)

23. Holbrook, J., J. Squires, B. Bollenbacher, R. Graham, L. Olson, G. Hanvey, S. Jackson, and R. Lawrence.  2018.  Spatio-temporal responses of Canada lynx to silvicultural treatments within the Northern Rockies, U.S. Forest Ecology and Management 422:114-124. (pdf)

22. Savage, S., R. Lawrence, J. Squires, J. Holbrook, L. Olson, J. Braaten, and W. Cohen.  2018.  Shifts in forest structure in northwest Montana from 1972 to 2015 using the Landsat archive from Multispectral scanner to Operational Land Imager. Forests 9:157. (pdf)  

21. Kosterman, M., J. Squires, J. Holbrook, D. Pletscher, and M. Hebblewhite.  2018.  Forest structure provides the income for reproductive success in a southern population of Canada lynx.  Ecological Applications 28:1032-1043. (pdf) (Cover Article)

20. Holbrook, J.,  J. Squires, L. Olson, N. DeCesare, and R. Lawrence.  2017.  Understanding and predicting habitat for wildlife conservation: the case of Canada lynx at the range periphery.  Ecosphere 8:e01939. (pdf)  

19. Mumma, M., J. Holbrook, N. Rayl, C. Zieminski, T. Fuller, J. Organ, S. Mahoney, and L. Waits.  2017.  Examining spatial patterns of selection and use for an altered predator guild.  Oecologia 185:725-735. (pdf) 

18. Vierling, K., J. Aycrigg, T. Cohn, J. Holbrook, T. Lorenz, and L. Svancara.  In Press.  From the talk to the walk: effective communication makes for effective management.  Chapter for upcoming Landscape and Wildlife Ecology book. 

17. Holbrook, J., J. Squires, L. Olson, R. Lawrence, and S. Savage.  2017.  Multi-scale habitat relationships of snowshoe hares in the mixed conifer landscape of the Northern Rockies, USA: cross-scale effects of horizontal cover with implications for forest management.  Ecology and Evolution 7:125- 144. (pdf)

16. Holbrook, J., D. Pilliod, R. Arkle, K. Vierling, J. Rachlow, and M. Wiest.  2016.  Transition of vegetation states positively affects harvester ants in the Great Basin, United States.  Rangeland Ecology & Management 69:449-456. (pdf) 

15. Boelman, N., J. Holbrook, H. Greaves, J. Krause, H. Chmura, T. Magney, J. Perez, J. Eitel, L. Gough, K. Vierling, J. Wingfield, and L. Vierling. 2016. Airborne laser scanning and spectral remote sensing give a bird's eye perspective on arctic tundra breeding habitat at multiple scales. Remote Sensing of Environment 184:337-349. (pdf)

14. Holbrook, J., R. Arkle, J. Rachlow, K. Vierling, D. Pilliod, and M. Wiest. 2016. Occupancy and abundance of predator and prey: implications of the fire- cheatgrass cycle in sagebrush ecosystems. Ecosphere 7:e01307. (pdf)

13. Bosque-Pérez, N., P. Klos, J. Force, L. Waits, K. Cleary, P. Rhoades,  S. Galbraith, A. Bentley Brymer, M. O’Rourke, S. Eigenbrode, B. Finegan, J. Wulfhorst, N. Sibelet, and J. Holbrook. 2016. A pedagogical model for team-based, problem-focused interdisciplinary doctoral education. BioScience 66:477-488. (pdf) 

12. Bentley Brymer, A., J. Holbrook, R. Niemeyer, A. Suazo, J. Wulfhorst, K. Vierling, B. Newingham, T. Link, and J. Rachlow. 2016. A social-ecological impact assessment for public land management: application of a conceptual and methodological framework.  Ecology and Society 21:9. (pdf)

11. Gosselin, E., J. Holbrook, K. Huggler, E. Brown, K. Vierling, R. Arkle, and D. Pilliod. 2016. Ecosystem engineering of harvester ants: effects on vegetation in a semi-arid environment.  Western North American Naturalist 76:82-89. (pdf)

10. Holbrook, J., K. Vierling, L. Vierling, P. Adam, and A. Hudak.  2015.  Occupancy of  red-naped sapsuckers: using LiDAR to understand the effects of vegetation structure and disturbance. Ecology and Evolution 5:5383-5393. (pdf)

9. Klos, P., J. Abatzoglou, J. Blades, M. Clark, M. Dodd, T. Hall, A. Haruch, P. Higuera, J. Holbrook, V. Jansen, K. Kemp, A. Lankford, A. Lamar, T. Link, T. Magney, A.  Meddens, L. Mitchell, B. Moore, P. Morgan, B. Newingham, R. Niemeyer, B. Soderquist, A. Suazo, K. Vierling, V. Walden, and C. Walsh.  2015.  Indicators of climate change in Idaho: an assessment framework for  coupling biophysical change and social perception.  Weather, Climate, and Society 7:238-254. (pdf)

8. Holbrook, J., R. Arkle, J. Rachlow, K. Vierling, and D. Pilliod.  2015.  Sampling  animal sign in heterogeneous environments: how much is enough? Journal of Arid Environments 119:51-55. (pdf)

7. Balkenhol, N., J. Holbrook, D. Onorato, P. Zager, C. White, and L. Waits.  2014.  A multi-method  approach for analyzing hierarchical genetic structures: a case study  with cougars Puma concolor. Ecography 37:1-12. (pdf)

6. Holbrook, J., A. Caso, R. DeYoung, and M. Tewes.  2013.  Population genetics of  jaguarundis in Mexico: implications for future research and conservation. Wildlife Society Bulletin 37:336-341. (pdf) (Cover Article)

5. Holbrook, J., R. DeYoung, J. Janecka, M. Tewes, R. Honeycutt, and J. Young.  2012.   Genetic diversity, population structure, and movements of mountain  lions, Puma concolor, in Texas. Journal of Mammalogy 93:989-1000. (pdf)   

4. Holbrook, J., R. DeYoung, M. Tewes, and J. Young.  2012.  Demographic history of an elusive carnivore: using museums to inform management.Evolutionary Applications 5:619-628. (pdf)

3. Holbrook, J., R. DeYoung, A. Caso, M. Tewes, and J. Young.  2012.  Hog-nosed skunks (Conepatus leuconotus) along the Gulf of Mexico: population status and genetic diversity. Southwestern Naturalist 57:223-225. (pdf)

2. Holbrook, J., R. DeYoung, M. Tewes, J. Young, J. Mays, and E. Meyers.  2011.  Natural dispersal or illegal pets?  Limitations on assigning origin to  road- killed ocelots in the southwestern United States. Wildlife Society Bulletin 35:504-507. (pdf) 

1. Holbrook, J., R. DeYoung, M. Tewes, and J. Young.  2011.  Demographic history of  mountain lions in Texas. Pages 97-103 in Williams, J., H. Robinson, and  L. Sweanor, editors. Proceedings of the 10th Mountain Lion Workshop. May 2-5, 2011. Bozeman, Montana, USA. (pdf)

Other publications

Heinemeyer, K.S., J.R. Squires, M. Hebblewhite, J.S. Smith, J.D. Holbrook, and J.P. Copeland.  2017.  Wolverine-Winter Recreation Project: Investigating the interaction between wolverines and winter recreation. Final Report, December 15, 2017. 71pp. Available at: www.roundriver.org/wolverine. 

Tewes, M., J. Holbrook, R. DeYoung, and J. Young. 2012. Potential impacts of the Eagle Ford Shale development on the cougar population in south Texas. Wild Felid  Monitor 5(2):19.

DeYoung, R., J. Holbrook, M.  Tewes, and J. Young.  2012.  Using museums to inform management: genetic insights into Texas mountain lion populations. Pages 32-33 in the April Issue of Texas Parks and Wildlife Magazine.