Current Research

My research focuses on understanding the effects of climate change, contemporary forest harvest and disturbances on fish in both riparian and aquatic habitats, and more generally on the ecological linkages among water, land, and people. My goals are to use multiple lines of inquiry from various approaches to understand the complexities of fish and other species in the aquatic and riparian world that have implications for management and policy planning.

Among my current projects, I am working to develop and apply novel tools and approaches using metabarcoding of environmental DNA in water to evaluate the presence of multiple species in streams throughout Oregon, Washington, and northern California. Many aquatic species in streams are cryptic or found in low numbers, making them difficult to detect. This method is a potentially low cost, rapid assessment tool for monitoring aquatic species of concern and invasive species that would aid managers and landowners in planning for multiple management objectives. Learn more about this project here.

Research Interests

• Aquatic and riparian ecology
• Aquatic biodiversity
• Fisheries science
• Pacific trout conservation
• Salmonid population dynamics
• Environmental DNA (eDNA)
• Metagenomics, next-generation DNA sequencing tools

Past Research

My recent research includes work on the diversity and conservation of Pacific trout throughout western North America, the population dynamics of salmonids, how disturbance regimes in stream systems of the Pacific Northwest impact salmonids, and how stream habitat variability can shield some fish from the effects of forest harvest and climate change. In addition to my research in aquatic and riparian systems, I have also investigated the diversity inequities in the field of fisheries science with regard to gender and race/ethnicity disparities.

For more information on these projects, check out the links below:
Local habitat conditions can safeguard cutthroat trout against forest harvest, climate change
Native Pacific Trout: Swimming Into the Future?
Brooke Penaluna: Projects and Activities

Publications

• Penaluna, Brooke E.; Allen, Jennifer M.; Arismendi, Ivan ; Levi, Taal ; Garcia, Tiffany S.; Walter, Jason K. 2021. Better boundaries: identifying the upper extent of fish distributions in forested streams using eDNA and electrofishing.
• Penaluna, Brooke E.; Dunham, Jason B.; Andersen, Heidi V. 2021. Nowhere to hide: The importance of instream cover for stream living Coastal Cutthroat Trout during seasonal low flow.
• Armstrong, Jonathan B.; Fullerton, Aimee H.; Jordan, Chris E.; Ebersole, Joseph L.; Bellmore, J. Ryan; Arismendi, Ivan ; Penaluna, Brooke E.; Reeves, Gordon H. 2021. The importance of warm habitat to the growth regime of cold-water fishes.
• Murphy, Christina A.; Zatkos, Lauren ; Antonelli, Kelsi ; Cárdenas, A. Brent; Linkem, Christina ; Manning, Michael ; Olivos, Juan Andres; Penaluna, Brooke E.; Pollock, Amanda ; Arismendi, Ivan . 2020. AFS Roots: Mothers of Fishes.
• Zatkos, Lauren ; Murphy, Christina A.; Pollock, Amanda ; Penaluna, Brooke E.; Olivos, J. Andres; Mowlds, Emilee ; Moffitt, Christine ; Manning, Michael ; Linkem, Christina ; Holst, Lisa ; Cárdenas, A. Brent; Arismendi, Ivan . 2020. AFS roots: Emmeline Moore, all things to all fishes.
• Batavia, Chelsea ; Penaluna, Brooke ; Lemberger, Thea Rose; Nelson, Michael Paul. 2020. Considering the case for diversity in natural resources.
• Abernethy, Erin F.; Arismendi, Ivan ; Boegehold, Anna G.; Colón-Gaud, Checo ; Cover, Matthew R.; Larson, Erin I; Moody, Eric K.; Penaluna, Brooke E.; Shogren, Arial J.; Webster, Alex J.; Woller-Skar, M. Megan. 2020. Diverse, equitable, and inclusive scientific societies: Progress and opportunities in the Society for Freshwater Science.
• Arismendi, Ivan ; Penaluna, Brooke E.; Jara, Carlos G. 2020. Introduced beaver improve growth of non native trout in Tierra del Fuego, South America.
• Coble, Ashley A.; Barnard, Holly ; Du, Enhao ; Johnson, Sherri ; Jones, Julia ; Keppeler, Elizabeth ; Kwon, Hyojung ; Link, Timothy E.; Penaluna, Brooke E.; Reiter, Maryanne ; River, Mark ; Puettmann, Klaus ; Wagenbrenner, Joseph . 2020. Long-term hydrological response to forest harvest during seasonal low flow: Potential implications for current forest practices.
• Penaluna, Brooke E.; Shively, Dan ; Roper, Brett B.; Cerveny, Lee K.; Witt, Shelly ; Rothlisberger, John D. 2020. Mentoring relates to job satisfaction for fish biologists: a longitudinal study of the USDA Forest Service.
• Hauck, Laura L.; Weitemier, Kevin A.; Penaluna, Brooke E.; Garcia, Tiffany S.; Cronn, Richard . 2019. Casting a broader net: Using microfluidic metagenomics to capture aquatic biodiversity data from diverse taxonomic targets.
• Penaluna, Brooke ; Ellenburg, Loretta . 2019. Reoccurrence of the Umpqua Chub (Oregonichthys kalawatseti) in the North Umpqua after almost a century.
• Flitcroft, Rebecca ; Lewis, Sarah ; Arismendi, Ivan ; Davis, Chante ; Giannico, Guillermo ; Penaluna, Brooke ; Santelmann, Mary ; Safeeq, Mohammad ; Snyder, Jeff . 2019. Using expressed behaviour of coho salmon (Oncorhynchus kisutch) to evaluate the vulnerability of upriver migrants under future hydrological regimes: Management implications and conservation planning.
• Coble, Ashley A.; Flinders, Camille A.; Homyack, Jessica A.; Penaluna, Brooke E.; Cronn, Richard C.; Weitemier, Kevin . 2019. eDNA as a tool for identifying freshwater species in sustainable forestry: A critical review and potential future applications.
• Penaluna, Brooke E.; Arismendi, Ivan . 2018. Unraveling the hidden lives of warm-water fish communities.
• Penaluna, Brooke E.; Reeves, Gordon H.; Barnett, Zanethia ; Bisson, Peter A.; Buffington, John M.; Dolloff, Andy ; Flitcroft, Rebecca ; Luce, Charles H.; Nislow, Keith ; Rothlisberger, John ; Warren, Mel.  . 2018. Using natural disturbance and portfolio concepts to guide aquatic-riparian ecosystem management.
• Penaluna, Brooke E.; Olson, Deanna H.; Flitcroft, Rebecca L.; Weber, Matthew A.; Bellmore, J. Ryan; Wondzell, Steven M.; Dunham, Jason B.; Johnson, Sherri L.; Reeves, Gordon H. 2017. Aquatic biodiversity in forests: a weak link in ecosystem services resilience.
• Penaluna, Brooke E.; Arismendi, Ivan; Moffitt, Christine M.; Penney, Zachary L. 2017. Nine proposed action areas to enhance diversity and inclusion in the American Fisheries Society.
• Schwartz, Michael; Penaluna, Brooke; Wilcox, Taylor. 2017. eDNA sampling: Not just for fisheries biologists anymore.
• Penaluna, Brooke E. 2016. Conservacion de truchas del Pacifico.
• Penaluna, Brooke E.; Abadía-Cardoso, Alicia; Dunham, Jason B.; García-Dé León, Francisco J.; Gresswell, Robert E.; Luna, Arturo Ruiz; Taylor, Eric B.; Shepard, Bradley B.; Al-Chokhachy, Robert; Muhlfeld, Clint C.; Bestgen, Kevin R.; Rogers, Kevin; Escalante, Marco A.; Keeley, Ernest R.; Temple, Gabriel M.; Williams, Jack E.; Matthews, Kathleen R.; Pierce, Ron; Mayden, Richard L.; Kovach, Ryan P.; Garza, John Carlos; Fausch, Kurt D. 2016. Conservation of native Pacific trout diversity in Western North America.
• Arismendi, Ivan; Penaluna, Brooke E. 2016. Examining diversity inequities in fisheries science: a call to action.
• Penaluna, Brooke. 2016. The histories and destinies of Chile and California.
• Watts, Andrea; Penaluna, Brooke; Dunham, Jason. 2016. The idiosyncrasies of streams: local variability mitigates vulnerability of trout to changing conditions.
• Penaluna, Brooke E.; Dunham, Jason B.; Noakes, David L. G. 2015. Instream cover and shade mediate avian predation on trout in semi-natural streams.
• Penaluna, Brooke E.; Noakes, David L. G. 2015. Instream cover and shade mediate avian predation on trout in semi-natural streams.
• Penaluna, Brooke E.; Dunham, Jason B.; Railsback, Steve F.; Arismendi, Ivan; Johnson, Sherri L.; Bilby, Robert E.; Safeeq, Mohammad; Skaugset, Arne E.; Meador, James P. 2015. Local variability mediates vulnerability of trout populations to land use and climate change.
• Penaluna, Brooke E.; Bodensteiner, Leo R. 2015. North Pacific Spiny Dogfish (Squalus suckleyi) presence in Eelgrass habitat in the Salish Sea, Washington.
• Penaluna, Brooke E.; Railsback, Steve F.; Dunham, Jason B.; Johnson, Sherri; Bilby, Robert E.; Skaugset, Arne E.; Bradford, Michael. 2015. The role of the geophysical template and environmental regimes in controlling stream-living trout populations.
• Arismendi, Ivan; Penaluna, Brooke E.; Dunham, Jason B.; Garcia de Leaniz, Carlos; Soto, Doris; Fleming, Ian A.; Gomez-Uchida, Daniel; Gajardo, Gonzalo; Varga, Pamela V.; León-Muñoz, Jorge. 2014. Differential invasion success of salmonids in southern Chile: patterns and hypotheses.

Research Highlights

Highlight	Title	Year
PNW-2019-51	A New Tool Manages Salmonid Response to Climate Change Salmonids, like endangered Coho salmon in Washington and Oregon, have a complex life history that is tied to environmental cues such as river te ...	2019
PNW-2019-49	Invisible eDNA Reveals Stream and Riparian Ecosystem Biodiversity Environmental DNA is a powerful new approach that, with a single water sample, can detect a host of stream and riparian species—from pathogens ...	2019
PNW-2016-220	New Study Finds a Surprising Lack of Diversity Among Fisheries Scientists Women and minorities are a small portion of tenure-track faculty and federal-government professionals in fisheries sciences, likely because of s ...	2016