2019

2018

Cooke, Brian; Battaglia, Mike; Dwire, Kathleen; Isaak, Dan; Joyce, Linda; Merritt, David; Oropeza, Jill; Regan, Claudia; Reynolds, Lindsay; Rice, Janine; Schillie, Trey. 2018. Warming and warnings: Assessing climate change vulnerability in the Rocky Mountain Region. Science You Can Use Bulletin, Special General Technical Report Companion. Fort Collins, CO: Rocky Mountain Research Station. 15 p.

Dysthe JC, Carim KJ, Franklin TW, Kikkert D, Young MK, McKelvey KS, Schwartz MK. 2018. Molecular detection of northern leatherside chub (Lepidomeda copei) DNA in environmental samples. Northwest Science, 78, 92–99.

Dysthe, Joseph C.; Rodgers, Torrey; Franklin, Thomas W.; Carim, Kellie J.; Young, Michael K.; McKelvey, Kevin S.; Mock, Karen, E.; Schwartz, Michael K. . 2018. Repurposing environmental DNA samples—detecting the western pearlshell (Margaritifera falcata) as a proof of concept. Ecology and Evolution. 00:1–12. DOI: 10.1002/ece3.3898.

Franklin, Thomas W.; Dysthe, Joseph C.; Rubenson, Erika S.; Carim, Kellie J.; Olden, Julian D.; McKelvey, Kevin S.; Young, Michael K.; Schwartz, Michael K. 2018. A non-invasive sampling method for detecting non-native smallmouth bass (Micropterus dolomieu). Northwest Science. 92(2): 149-157.

Isaak, Daniel J.; Luce, Charles H.; Chandler, Gwynne L.; Horan, Dona L.; Wollrab, Sherry P. 2018. Principle components of thermal regimes in mountain river networks. Hydrology and Earth Systems Sciences. 22: 6225-6240.

Isaak, D.J., C. Luce, D. Horan, G. Chandler, S. Wollrab, and D. Nagel. 2018. Global warming of salmon and trout rivers in the northwestern U.S.: Road to ruin or path through purgatory? Transactions of the American Fisheries Society 147: 566-587. DOI:10.1002/tafs.10059.

related poster: Global warming of salmon and trout rivers in the northwestern U.S.: Road to ruin or path through purgatory?

related briefing paper: Fishing for Climate Data: How Recent Research is Helping to Forecast Changes in Salmon and Trout Habitat

Isaak, Daniel J.; Ramsey, Katherine; Chatel, John C.; Konnoff, Deborah L.; Gecy, Robert A.; Horan, Dona. 2017. Climate change, fish, and aquatic habitat in the Blue Mountains [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 91-148.

Isaak, Daniel J.; Young, Michael K.; McConnell, Callie; Roper, Brett B.; Archer, Eric K.; Staab, Brian; Hirsch, Christine; Nagel, David E.; Schwartz, Michael K.; Chandler, Gwynne L. 2018. Crowd-sourced databases as essential elements for Forest Service partnerships and aquatic resource conservation. Fisheries. 43(9): 423-430.

Isaak, Daniel J.; Young, Michael K.; Tait, Cynthia; Duffield, Daniel; Horan, Dona L.; Nagel, David E.; Groce, Matthew C. 2018. Effects of climate change on native fish and other aquatic species [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L.; Ho, Joanne J.; Little, Natalie, J.; Joyce, Linda A., eds. Climate change vulnerability and adaptation in the Intermountain Region [Part 1]. Gen. Tech. Rep. RMRS-GTR-375. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. p. 89-111.

Leasure, Douglas R.; Wenger, Seth J.; Chelgren, Nathan D.; Neville, Helen M.; Dauwalter, Daniel C.; Bjork, Robin; Fesenmyer, Kurt A.; Dunham, Jason B.; Peacock, Mary M.; Luce, Charlie H.; Lute, Abby C.; Isaak, Daniel J. 2018. Hierarchical multi-population viability analysis. Ecology. doi: 10.1002/ecy.2538.

Rhoades, Charles C.; Pelz, Kristen A.; Fornwalt, Paula J.; Wolk, Brett H.; Cheng, Antony S. 2018. Overlapping bark beetle outbreaks, salvage logging and wildfire restructure a lodgepole pine ecosystem. Forests. 9(3): 101.

Robichaud PR, Massman WJ, Lesiecki ML. 2018. High soil temperature data archive from prescribed fires and wildfires database. Ft. Collins, CO: US Department of Agriculture, Forest Service, Rocky Mountain Research Station.

Shively, Dan; Rothlisberger, John D.; Gillespie, Nathaniel; Dombeck, Mike; Moore, Virgil; Roghair, Craig; Demario, Devin; McCormick, Frank; Weldon, Leslie. 2018. Historical perspectives and a new U.S. Forest Service strategy for fish and aquatic stewardship. Fisheries. 43(9): 386-395.

Wilcox, T.M., K. J. Carim, M. K. Young, K. S. McKelvey, T. W. Franklin, M. K. Schwartz. 2018. Comment: The Importance of Sound Methodology in Environmental DNA Sampling. North American Journal of Fisheries Management DOI: 10.1002/nafm.10055.

Wilcox, T.M., Young, M.K., McKelvey, K.S., Isaak, D.J., Horan, D.L. and Schwartz, M.K., 2018. Fine-scale environmental DNA sampling reveals climate-mediated interactions between native and invasive trout species. Ecosphere. 9: e02500. 

Wilcox, T.M., Zarn, K.E., Piggott, M.P., Young, M.K., McKelvey, K.S. and Schwartz, M.K. 2018. Capture enrichment of aquatic environmental DNA: A first proof of concept. Molecular Ecology Resources 18:1392-1401. 

Young, Michael K.; Isaak, Daniel J.; Spaulding, Scott; Thomas, Cameron A.; Barndt, Scott A.; Groce, Matthew C.; Horan, Dona; Nagel, David E. 2018. Climate vulnerability of native cold-water salmonids in the Northern Rockies Region [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L.; Dante-Wood, S. Karen; Hoang, Linh; Ho, Joanne J.; Joyce, Linda A., eds. Climate change vulnerability and adaptation in the Northern Rocky Mountains [Part 1]. Gen. Tech. Rep. RMRS-GTR-374. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. p. 87-127.

Young, Michael K.; McKelvey, Kevin S.; Jennings, Tara; Carter, Katie; Cronn, Richard; Keeley, Ernest R.; Loxterman, Janet L.; Pilgrim, Kristine L.; Schwartz, Michael K. 2018. The phylogeography of westslope cutthroat trout. In: Trotter, P.; Bisson, P.; Schultz, L.; Roper, B., eds. Cutthroat Trout: Evolutionary Biology and Taxonomy. Special Publication 36. Bethesda, MD: American Fisheries Society. p. 261-301.

2017

Bisson, Peter A.; Montgomery, David R.; Buffington, John M. 2017. Valley segments, stream reaches, and channel units [Chapter 2]. In: Hauer, F. R.; Lamberti, G. A., eds. Methods in Stream Ecology - Volume 1: Ecosystem Structure (Third Edition). San Diego, CA: Academic Press. p. 21-47.

Clifton, Caty F.; Day, Kate T.; Dello, Kathie; Grant, Gordon E.; Halofsky, Jessica E.; Isaak, Daniel J.; Luce, Charles H.; Safeeq, Mohammad; Staab, Brian P.; Stevenson, John. 2017. Climate change and hydrology in the Blue Mountains [Chapter 3]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 25-52.

Clifton, Caty F.; Day, Kate T.; Grant, Gordon E.; Halofsky, Jessica E.; Luce, Charles H.; Staab, Brian P. 2017. Climate change, water resources, and roads in the Blue Mountains [Chapter 4]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 53-90.

Dwire, Kathleen A.; Mellmann-Brown, Sabine. 2017. Climate change and special habitats in the Blue Mountains: Riparian areas, wetlands, and groundwater-dependent ecosystems [Chapter 7]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 251-323.

Dysthe, Joseph C.; Carim, Kellie J.; Ruggles, Michael; McKelvey, Kevin S.; Young, Michael K.; Schwartz, Michael K. 2017. Environmental DNA assays for the sister taxa aauger (Sander canadensis) and walleye (Sander vitreus). PLoS ONE 12: e0176459.

Fornwalt, Paula J.; Rocca, Monique E.; Battaglia, Mike A.; Rhoades, Charles C.; Ryan, Michael G. 2017. Mulching fuels treatments promote understory plant communities in three Colorado, USA, coniferous forest types. Forest Ecology and Management. 385: 214-224.

Garcia-Chevesich, Pablo A.; Neary, Daniel G.; Scott, David F.; Benyon, Teresa Reyna, eds. 2017. Forest management and the impact on water resources: A review of 13 countries. IHP - VIII / Technical Document No. 37. Paris, France: United Nations Educational, Scientific, and Cultural Organization (UNESCO), International Hydrological Program. 203 p.

Guzevich, John W.; Thurow, Russell F. 2017. Fine-scale characteristics of fluvial bull trout reeds and adjacent sites in Rapid River, Idaho, 1993-2007. Northwest Science. 91(2): 198-213. http://dx.doi.org/10.3955/046.091.0209.

Hakamada, Rodrigo; Hubbard, Robert M.; Ferraz, Silvio; Stape, Jose Luiz; Lemos, Cristiane. 2017. Biomass production and potential water stress increase with planting density in four highly productive clonal Eucalyptus genotypes. Southern Forests: A Journal of Forest Science. 79(3): 251-257. doi: 10.2989/20702620.2016.1256041.

Hood, Paul R.; Nelson, Kellen N.; Rhoades, Charles C.; Tinker, Daniel B. 2017. The effect of salvage logging on surface fuel loads and fuel moisture in beetle-infested lodgepole pine forests. Forest Ecology and Management. 390: 80-88.

Isaak, Daniel J.; Ramsey, Katherine; Chatel, John C.; Konnoff, Deborah L.; Gecy, Robert A.; Horan, Dona. 2017. Climate change, fish, and aquatic habitat in the Blue Mountains [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 91-148.

Isaak, Daniel J.; Ver Hoef, Jay M.; Peterson, Erin E.; Horan, Dona L.; Nagel, David E. 2017. Scalable population estimates using spatial-stream-network (SSN) models, fish density surveys, and national geospatial database frameworks for streams. Canadian Journal of Fisheries and Aquatic Sciences. 74: 147-156.

Isaak, D., S. Wenger, E. Peterson, J. Ver Hoef, D. Nagel, C. Luce, S. Hostetler, J. Dunham, B. Roper, S. Wollrab, G. Chandler, D. Horan, S. Parkes-Payne. 2017. The NorWeST summer stream temperature model and scenarios for the western U.S.: A crowd-sourced database and new geospatial tools foster a user community and predict broad climate warming of rivers and streams. Water Resources Research, 53: 9181-9205. https://doi.org/10.1002/2017WR020969.

Isaak, Daniel J.; Wenger, Seth J.; Young, Michael K. 2017. Big biology meets microclimatology: Defining thermal niches of ectotherms at landscape scales for conservation planning. Ecological Applications. doi: 10.1002/eap.1501.

Isaak, Daniel; Young, Michael. 2017. Delineating climate refugia for native aquatic species with big crowd-sourced databases. Mountain Views. December 2017: 3-6.

Neary, Daniel G. 2017. Forest management and water in the United States [Chapter 13]. In: Garcia-Chevesich, Pablo A.; Neary, Daniel G.; Scott, David F.; Benyon, Teresa Reyna, eds. Forest management and the impact on water resources: A review of 13 countries. IHP - VIII / Technical Document No. 37. Paris, France: United Nations Educational, Scientific, and Cultural Organization (UNESCO), International Hydrological Program. p. 181-203.

Petrie, M. D.; Bradford, J. B.; Hubbard, R. M.; Lauenroth, W. K.; Andrews, C. M.; Schlaepfer, D. R. 2017. Climate change may restrict dryland forest regeneration in the 21st century. Ecology. 98(6): 1548-1559.

Rhoades, Charles C.; Minatre, Kerri L.; Pierson, Derek N.; Fegel, Timothy S.; Cotrufo, M. Francesca; Kelly, Eugene F. 2017. Examining the potential of forest residue-based amendments for post-wildfire rehabilitation in Colorado, USA. Scientifica: Article ID 4758316.

Rothlisberger, John D.; Scalley, Tamara Heartsill; Thurow, Russell F. 2017. The role of wild and scenic rivers in the conservation of aquatic biodiversity. International Journal of Wilderness. 23(2): 49-63, 72.

Schwartz, Michael K.; Penaluna, Brooke E.; Wilcox, Taylor M. 2017. eDNA - Not just for fisheries biologists anymore. The Wildlife Professional. November/December 2017. Online: http://wildlife.org/not-just-for-fisheries-biologists-anymore/.

Vorster, Anthony G.; Evangelista, Paul H.; Stohlgren, Thomas J.; Kumar, Sunil; Rhoades, Charles C.; Hubbard, Robert M.; Cheng, Antony S.; Elder, Kelly. 2017. Severity of a mountain pine beetle outbreak across a range of stand conditions in Fraser Experimental Forest, Colorado, United States. Forest Ecology and Management. 389: 116-126.

Vose, James M.; Clark, James S.; Luce, Charles H.; Patel-Weynard, Toral, eds. 2016. Effects of drought on forests and rangelands in the United States: A comprehensive science synthesis. Gen. Tech. Rep. WO-93b. Washington, DC: U.S. Department of Agriculture, Forest Service, Washington Office. 289 p.

2016

Benjankar, Rohan; Tonina, Daniele; Marzadri, Alessandra; McKean, Jim; Isaak, Daniel J. 2016. Effects of habitat quality and ambient hyporheic flows on salmon spawning site selection. Journal of Geophysical Research: Biogeosciences. 121: 1222-1235.

Brooks, Erin S.; Dobre, Mariana; Elliot, William J.; Wu, Joan Q.; Boll, Jan. 2016. Watershed-scale evaluation of the Water Erosion Prediction Project (WEPP) model in the Lake Tahoe basin. Journal of Hydrology. 533: 389-402.

Carim, K. J.; Christianson, K. R.; McKelvey, K. S.; Pate, W. M.; Silver, D. B.; Johnson, B. M.; Galloway, B. T.; Young, M. K.; Schwartz, M. K. 2016. Environmental DNA marker development with sparse biological information: A case study on opossum shrimp (Mysis diluviana). PLoS ONE. 11: e0161664.

Carim, Kellie J.; Dysthe, J. Caleb; Young, Michael K.; McKelvey, Kevin S.; Schwartz, Michael K. 2017. A noninvasive tool to assess the distribution of Pacific lamprey (Entosphenus tridentatus) in the Columbia River basin. PLoS ONE. 12(1): e0169334.

Carim, K. J.; Dysthe, J. C. S.; Young, M. K.; McKelvey, K. S.; Schwartz, M. K. 2016. An environmental DNA assay for detecting Arctic grayling in the upper Missouri River basin, North America. Conservation Genetics Resources. doi: 10.1007/s12686-016-0531-1.

Carim, Kellie J.; McKelvey, Kevin S.; Young, Michael K.; Wilcox, Taylor M.; Schwartz, Michael K. 2016. A protocol for collecting environmental DNA samples from streams. Gen. Tech. Rep. RMRS-GTR-355. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 18 p.

Carnie, Ryan; Tonina, Daniele; McKean, James A.; Isaak, Daniel. 2016. Habitat connectivity as a metric for aquatic microhabitat quality: Application to Chinook salmon spawning habitat. Ecohydrology. 9: 982-994.

Cooke, Brian; Elliot, Bill; Miller, Mary Ellen; Finney, Mark; Thompson, Matthew. 2016. Protecting the source: Tools to evaluate fuel treatment cost vs. water quality protection. Science You Can Use Bulletin, Issue 21. Fort Collins, CO: Rocky Mountain Research Station. 9 p.

Cotrufo, M. Francesca; Boot, Claudia M.; Kampf, Stephanie; Nelson, Peter A.; Brogan, Daniel J.; Covino, Tim; Haddix, Michelle L.; MacDonald, Lee H.; Rathburn, Sarah; Ryan-Burkett, Sandra; Schmeer, Sarah; Hall, Ed. 2016. Redistribution of pyrogenic carbon from hillslopes to stream corridors following a large montane wildfire. Global Biogeochemical Cycles. 30: 1348-1355.

Dwire, Kathleen A.; Meyer, Kristen E.; Riegel, Gregg; Burton, Timothy. 2016. Riparian fuel treatments in the western USA: Challenges and considerations. Gen. Tech. Rep. RMRS-GTR-352. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 156 p. | Stream Notes (The Technical Newsletter of the National Stream and Aquatic Ecology Center) May 2017 Issue.

Dysthe, Joseph C.; Carim, Kellie J.; Paroz, Yvette M.; McKelvey, Kevin S.; Young, Michael K.; Schwartz, Michael K. 2016. Quantitative PCR assays for detecting loach minnow (Rhinichthys cobitis) and spikedace (Meda fulgida) in the southwestern United States. PLoS One. 11: e0162200.

Elliot, William J. 2016. Development of online tools to support GIS watershed analyses. StreamNotes, August 2016. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, National Stream and Aquatic Ecology Center. p. 8-10.

Gould Gregory K.; Liu, Mingliang; Barber, Michael E.; Cherkauer, Keith A.; Robichaud, Peter R.; Adam, Jennifer C. 2016. The effects of climate change and extreme wildfire events on runoff erosion over a mountain watershed. Journal of Hydrology. 536: 74-91.

Isaak, Daniel J.; Young, Michael K.; Luce, Charles H.; Hostetler, Steven W.; Wenger, Seth J.; Peterson, Erin E.; Ver Hoef, Jay M.; Groce, Matthew C.; Horan, Dona L.; Nagel, David E. 2016. Slow climate velocities of mountain streams portend their role as refugia for cold-water biodiversity. PNAS. 113(16): 4374-4379.

Liu, X.; Wu, J. Q.; Conrad, P. W.; Dun, S.; Todd, C. S.; McNearny, R. L.; Elliot, W. J.; Rhee, H.; Clark, P. 2016. Impact of surface coal mining on soil hydraulic properties. Transactions of the Society for Mining, Metallurgy and Exploration. 338: 381-392.

McKelvey, Kevin S.; Young, Michael K.; Wilcox, Taylor M.; Bingham, Daniel M.; Pilgrim, Kristine L.; Schwartz, Michael K. 2016. Patterns of hybridization among cutthroat trout and rainbow trout in northern Rocky Mountain streams. Ecology and Evolution. doi: 10.1002/ece3.1887.

McKelvey, K. S.; Young, M. K.; Knotek, W. L.; Carim, K. J.; Wilcox, T. M.; Padgett-Stewart, T. M.; Schwartz, M. K. 2016. Sampling large geographic areas for rare species using environmental DNA: A study of bull trout Salvelinus confluentus occupancy in western Montana. Journal of Fish Biology. doi: 10.1111/jfb.12863.

Millar, David J.; Cooper, David J.; Dwire, Kathleen A.; Hubbard, Robert M.; von Fischer, Joseph. 2016. Mountain peatlands range from CO2 sinks at high elevations to sources at low elevations: Implications for a changing climate. Ecosystems. doi: 10.1007/s10021-016-0034-7.

Miller, Mary Ellen; Elliot, William J. 2016. A rapid response database in support of post-fire hydrological modeling. StreamNotes, February 2016. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, National Stream and Aquatic Ecology Center. p. 1-7.

Miller, M. E.; Elliot, W. J.; Billmire, M.; Robichaud, P. R.; Endsley, K. A. 2016. Rapid-response tools and datasets for post-fire remediation: Linking remote sensing and process-based hydrological models. International Journal of Wildland Fire. 25: 1061-1073.

Neary, Daniel G. 2016. Long-term forest paired catchment studies: What do they tell us that landscape-level monitoring does not? Forests. 7: 164.

Neary, Daniel G.; Baillie, Brenda R. 2016. Cumulative effects analysis of the water quality risk of herbicides used for site preparation in the Central North Island, New Zealand. Water. 8: 573.

Petrie, M. D.; Wildeman, A. M.; Bradford, J. B.; Hubbard, R .M.; Lauenroth, W. K. 2016. A review of precipitation and temperature control on seedling emergence and establishment for ponderosa and lodgepole pine forest regeneration. Forest Ecology and Management. 361: 328-338.

Rhoades, Charles C.; Hubbard, Robert M.; Elder, Kelly. 2016.  A decade of streamwater nitrogen and forest dynamics after a mountain pine beetle outbreak at the Fraser Experimental Forest, Colorado. Ecosystems. doi: 10.1007/s10021-016-0027-6.

Ruffing, Claire M.; Dwire, Kathleen A.; Daniels, Melinda D. 2016. Carbon pools in stream-riparian corridors: legacy of disturbance along mountain streams of south-eastern Wyoming. Earth Surface Processes and Landforms. 41: 208-223.

Sutfin, Nicholas A.; Wohl, Ellen E.; Dwire, Kathleen A. 2016. Banking carbon: A review of organic carbon storage and physical factors influencing retention in floodplains and riparian ecosystems. Earth Surface Processes and Landforms. 41: 38-60.

Thurow, Russell F. 2016. Life histories of potamodromous fishes [Chapter 4]. In: Morais, Pedro; Daverat, Franchise, eds. An introduction to fish migration. Boca Raton, FL: CRC Press. p. 29-54.

Vose, J., C. Miniat, C. Luce, H. Asbjornsen, P. Caldwell, J. Campbell, G. Gordon, D. Isaak, S. Loheide, and G. Sun 2016. Ecohydrological implications of drought for forests in the United States. Forest Ecology and Management doi:10.1016/j.foreco.2016.03.025.

Wilcox, Taylor M.; McKelvey, Kevin S.; Young, Michael K.; Sepulveda, Adam J.; Shepard, Bradley B.; Jane, Stephen F.; Whiteley, Andrew R.; Lowe, Winsor H.; Schwartz, Michael K. 2016. Understanding environmental DNA detection probabilities: A case study using a stream-dwelling char Salvelinus fontinalis. Biological Conservation. 194: 209-216.

Young MK, Isaak DJ, McKelvey KS, Wilcox TM, Bingham DM, Pilgrim KL, et al. (2016) Climate, demography, and zoogeography predict introgression thresholds in salmonid hybrid zones in Rocky Mountain streams. PLoS ONE 11(11): e0163563. doi:10.1371/journal.pone.0163563.

2015

Aregai, Tecle; Neary, Daniel. 2015. Water quality impacts of forest fires. Pollution Effects and Control. 3(2). doi: http://dx.doi.org/10.4172/2375-4397.1000140.

Baillie, Brenda R.; Neary, Daniel G. 2015. Water quality in New Zealand's planted forests: A review. New Zealand Journal of Forestry Science. 45: 7. doi 10.1186/s40490-015-0040-0.

Baillie, Brenda R.; Neary, Daniel G.; Gous, Stefan; Rolando, Carol A. 2015. Aquatic fate of aerially applied hexazinone and terbuthylazine in a New Zealand planted forest. Journal of Sustainable Watershed Science and Management. 2(1): 118-129.

Bellugi, D., D. G. Milledge, W. E. Dietrich, J. A. McKean, J. T. Perron, E. B. Sudderth, and B. Kazian. 2015. A spectral clustering search algorithm for predicting shallow landslide size and location. J. Geophys. Res. Earth Surf. 120, doi:10.1002/2014JF003137.

Bixby, Rebecca J.; Cooper, Scott D.; Gresswell, Robert E.; Brown, Lee E.; Dahm, Clifford N.; Dwire, Kathleen A. 2015. Fire effects on aquatic ecosystems: An assessment of the current state of the science. Freshwater Science. 34(4): 1340-1350.

Butler, B. W.; Wagenbrenner, N. S.; Forthofer, J. M.; Lamb, B. K.; Shannon, K. S.; Finn, D.; Eckman, R. M.; Clawson, K.; Bradshaw, L.; Sopko, P.; Beard, S.; Jimenez, D.; Wold, C.; Vosburgh, M. 2015. High-resolution observations of the near-surface wind field over an isolated mountain and in a steep river canyon. Atmospheric Chemistry and Physics. 15: 3785-3801.

Dwire, K.A.; Hubbard, R.; Bazan, R. 2015. Comparison of riparian and upland forest stand structure and fuel loads in beetle infested watersheds, southern Rocky Mountains. Forest Ecology and Management. 335 (2015) 194-206. doi:10.1016/j.foreco.2014.09.039.

Elliot, William; Brooks, Erin; Trauemer, Drea Em; Dobre, Mariana. 2015. Extending WEPP technology to predict fine sediment and phosphorus delivery from forested hillslopes. In: Proceedings of the 3rd Joint Federal Interagency Conference (10th Federal Interagency Sedimentation Conference and 5th Federal Interagency Hydrologic Modeling Conference); April 19-23, 2015; Reno, NV. WICP/ACWI. Online: http://acwi.gov/sos/pubs/index.html.

Isaak, D., M. Young, D. Nagel, D. Horan, and M. Groce. 2015. The cold-water climate shield: Delineating refugia for preserving salmonid fishes through the 21st Century. Global Change Biology. 21:2540-2553.

Related Website: Climate Shield Cold-Water Refuge Streams for Native Trout

Lazorchak, James M.; Griffith, Michael B.; Mills, Marc; Schubauer-Berigan, Joseph; McCormick, Frank; Brenner, Richard; Zeller, Craig. 2015. Proof of concept for the use of macroinvertebrates as indicators of polychlorinated biphenyls (PCB) contamination in Lake Hartwell. Environmental Toxicology and Chemistry. 34(6): 1277-1282.

Lisle, T., J.M. Buffington, P.R. Wilcock, and K. Bunte. 2015. Can rapid assessment protocols be used to judge sediment impairment in gravel-bed streams? A commentary. Journal of the American Water Resources Association. 51(2): 373-387.

Neary, Daniel G. 2015. Best practices guidelines for managing water in bioenergy feedstock production. Task 43. Report 2015:TR02. IEA Bioenergy. 125 p.

Pelz, K.A.; Rhoades, C.C., Hubbard, R.M.; Battaglia, M.A.; Smith, F.W. 2015.  Species composition influences management outcomes following mountain pine beetle in lodgepole pine-dominated forests. Forest Ecology and Management. 336: 11-20.

Rhoades, Charles C., and Fornwalt, Paula J. 2015. Pile burning creates a fifty-year legacy of openings in regenerating lodgepole pine forests in Colorado. Forest Ecology and Management. 336: 203-209.

Rhoades, Charles C.; Fornwalt, Paula J.; Paschke, Mark W.; Shanklin, Amber; Jonas, Jayne L. 2015. Recovery of small pile burn scars in conifer forests of the Colorado Front Range. Forest Ecology and Management. 347: 180-187.

Ruffing, C.M.; Daniels, M.D.; Dwire, K.A. 2015. Disturbance legacies of historic tie-drives persistently alter geomorphology and large wood characteristics in headwater streams, southeast Wyoming. Geomorphology. 231: 1-14. doi:10.1016/j.geomorph.2014.10.029

Sanchez-Murillo, Ricardo; Brooks, Erin S.; Elliot, William J.; Boll, Jan. 2015. Isotope hydrology and baseflow geochemistry in natural and human-altered watersheds in the Inland Pacific Northwest, USA. Isotopes in Environmental and Health Studies. doi: 10.1080/10256016.2015.1008468.

Schlesinger, William H.; Dietze, Michael C.; Jackson, Robert B.; Phillips, Richard P.; Rhoades, Charles C.; Rustad, Lindsey E.; Vose, James M. 2015. Forest biogeochemistry in response to drought. Global Change Biology. doi: 10.1111/gcb.13105.

Schweinle, Jorg; Rodl, Anne; Borjesson, Pal; Neary, Daniel G.; Langeveld, Johannes W.A.; Berndes, Goran; Cowie, Annette; Ahlgren, Serina; Margni, Manuele; Gaudreault, Caroline; Verschuyl, Jake; Wigley, T. Bently; Vice, Kirsten; Titus, Brian. 2015. Assessing the environmental performance of biomass supply chains: Methods, results, challenges and limitations. Task 43. Report 2015:TR01. IEA Bioenergy. 121 p.

Srivastava, Anurag; Wu, Joan Q.; Elliot, William J.; Brooks, Erin S. 2015. Enhancements to the Water Erosion Prediction Project (WEPP) for modeling large snow-dominated mountainous forest watersheds. Presented at the 2015 EWRI Watershed Management Conference; Reston, VA; August 4-7, 2015. Baltimore, MD: American Society of Civil Engineers, Environmental and Water Resources Institute. 20 p.

Thurow, Russell F. 2015. Accountability across resources [Salmon and Wilderness: Sharing the responsibility, sharing the benefits]. Wilderness Advisory Group News, WAG Tales. Winter 2015: 6, 11.

Wilcox, Taylor M.; Carim, Kellie J.; McKelvey, Kevin S.; Young, Micahel K.; Schwartz, Michael K. 2015. The dual challenges of generality and specificity when developing environmental DNA markers for species and subspecies of Oncorhynchus. PLoS ONE. 10(11): e0142008.

Wilcox, Taylor M.; McKelvey, Kevin S.; Young, Michael K.; Lowe, Winsor H.; Schwartz, Michael K. 2015. Environmental DNA particle size distribution from Brook Trout (Salvelinus fontinalis). Conservation Genetics Resources. 7: 639-641.

Williams, J. E.; Isaak, D. J.; Imhof, J.; Hendrickson, D. A.; McMillan, J. R. 2015. Cold-water fishes and climate change in North America. Reference Module in Earth Systems and Environmental Sciences. doi: 10.1016/B978-0-12-409548-9.09505-1.

2014

Benjankar, R., Tonina, D., McKean, J., 2014. One-dimensional and two-dimensional hydrodynamic modelling derived flow properties: impacts on aquatic habitat quality predictions. Earth Surface Processes and Landforms, doi: 10.1002/esp.3637

Caskey, S.T; Blaschak, T.S.; Wohl, E.; Schnackenberg, E.; Merritt, D.M.; Dwire, K.A. 2014. Downstream effects of stream flow diversion on channel characteristics and riparian vegetation in the Colorado Rocky Mountains, USA. Earth Surface Processes and Landforms. doi: 10.1002/esp.3651.

Hill, Brian H.; Kolka, Randall K.; McCormick, Frank H.; Starry, Matthew A. 2014. A synoptic survey of ecosystem services from headwater catchments in the United States. Ecosystem Services. 7: 106-115.

Holsinger, Lisa; Keane, Robert E.; Isaak, Daniel J.; Eby, Lisa; Young, Michael K. 2014. Relative effects of climate change and wildfires on stream temperatures: A simulation modeling approach in a Rocky Mountain watershed. Climatic Change. 124: 191-206. DOI 10.1007/s10584-014-1092-5.

Isaak, D.J. 2014. Blogging fish science. Fisheries 39 (12): 575.

Isaak, Daniel J. 2014. Climate change and the future of freshwater fisheries. In: Taylor, William W.; Lynch, Abigail J.; Leonard, Nancy J., eds. Future of Fisheries: Perspectives for the Next Generation of Professionals. Bethesda, MD: American Fisheries Society. Online: https://fisheries.org/shop/55073p.

Isaak, Daniel J.; Peterson, Erin E.; Ver Hoef, Jay M.; Wenger, Seth J.; Falke, Jeffrey A.; Torgersen, Christian E.; Sowder, Colin; Steel, E. Ashley; Fortin, Marie-Josee; Jordan, Chris E.; Ruesch, Aaron S.; Som, Nicholas; Monestiez, Pascal. 2014. Applications of spatial statistical network models to stream data. WIREs Water. doi: 10.1002/wat2.1023.

Isaak, D.J., M.K. Young, D. Nagel, and D. Horan. 2014. Cold water as a climate shield to preserve native trout through the 21st Century. Pages 110 - 116 in R. F. Carline and C. LoSapio, editors. Wild Trout XI: Looking Back and Moving Forward. Wild Trout Symposium, Bozeman, Montana. 392 pages.

Lemoine, Michael; Young, Michael K.; McKelvey, Kevin S.; Eby, Lisa; Pilgrim, Kristine L.; Schwartz, Michael K. 2014. Cottus schitsuumsh, a new species of sculpin (Scorpaeniformes: Cottidae) in the Columbia River basin, Idaho-Montana, USA. Zootaxa. 3755(3): 241-258.

Luce, Charles; Staab, Brian; Kramer, Marc; Wenger, Seth; Isaak, Dan; McConnell, Callie. 2014. Sensitivity of summer stream temperatures to climate variability in the Pacific Northwest. Water Resources Research. doi: 10.1002/2013WR014329.

Marzadri, A., Tonina, D., McKean, J., Tiedemann, M.G., Benjankar, R.M., 2014. Multi-scale streambed topographic and discharge effects on hyporheic at the stream network scale in confined streams. Journal of Hydrology, 519 Part B, pp. 1997-2011.

Maturana, Oscar; Tonina, Daniele; McKean, James A.; Buffington, John M.; Luce, Charles H.; Caamano, Diego. 2013. Modeling the effects of pulsed versus chronic sand inputs on salmonid spawning habitat in a low-gradient gravel-bed river. Earth Surface Processes and Landforms. doi: 10.1002/esp.3491.

Mayer, P.; Dwire, K.A.; Okay, J.A.; Vidon, P.G. 2014. Featured Collection Introduction: Riparian Ecosystems and Buffers II. Journal of the American Water Resources Association. 50(3): 529-532. DOI: 10.1111/jawr.12212.

McKean, J., Tonina, D., Bohn, C., Wright, C.W., 2014. Effects of bathymetric lidar errors on a multi-dimensional hydraulic model of flow and bed shear stress in a small clear-water stream. Journal of Geophysical Research - Earth Surface, 119 (3), 644-664, doi:10.1002/2013JF002897.

Milledge, D. G., D. Bellugi, J. A. McKean, A. L. Densmore, and W. E. Dietrich (2014), A multidimensional stability model for predicting shallow landslide size and shape across landscapes, J. Geophys. Res. Earth Surf., 119, doi:10.1002/2014JF003135.

Nagel, David E.; Buffington, John M.; Parkes, Sharon L.; Wenger, Seth; Goode, Jaime R. 2014. A landscape scale valley confinement algorithm: Delineating unconfined valley bottoms for geomorphic, aquatic, and riparian applications. Gen. Tech. Rep. RMRS-GTR- 321. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 42 p.

Otto, M.S.G., Hubbard, R.M., Binkley, D., Stape, J.L., 2014. Dominant clonal Eucalyptus grandis x urophylla trees use water more efficiently. For. Ecol. Manage. 328, 117-121.

Stamp, J., A. Hamilton, M. Craddock, L. Parker, A.H. Roy, D.J. Isaak, Z. Holden, M. Passmore, and B.G. Bierwagen. 2014. Best practices for continuous monitoring of temperature and flow in wadeable streams. Global Change Research Program, National Center for Environmental Assessment. EPA/600/R-13/170F. Washington, DC.

Vose, James M.; Swank, Wayne T.; Adams, Mary Beth; Amatya, Devendra; Campbell, John; Johnson, Sherri; Swanson, Frederick J.; Kolka, Randy; Lugo, Ariel E.; Musselman, Robert; Rhoades, Charles. 2014. The role of experimental forests and ranges in the development of ecosystem science and biogeochemical cycling research. In: Hayes, D.C.; Stout, S.L.; Crawford, R.H.; Hoover, A.P., eds. USDA Forest Service experimental forests and ranges research for the long term. New York, NY: 387-403.

Wang, Li; Wu, Joan Q.; Elliot, William J.; Feidler, Fritz R.; Lapin, Sergey. 2014. Linear diffusion-wave channel routing using a discrete Hayami convolution method. Journal of Hydrology. 509: 282-294.

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A

Adams, S. B., D. A. Schmetterling, and M. K. Young.  2005.  Instream movement by boreal toads (Bufo boreas boreas).  Herpetological Review 36:  27-33.

Andrews, Danielle M.; Barton, Christopher D.; Kolka, Randall K.; Rhoades, Charles C.; Dattilo, Adam J. 2011. Soil and water characteristics in restored canebrake and forest riparian zones. Journal of the American Water Resources Association (JAWRA). 47(4): 772-784.

Argerich, A.; Johnson, S. L.; Sebestyen, S. D.; Rhoades, C. C.; Greathouse, E.; Knoepp, J. D.; Adams, M. B.; Likens, G. E.; Campbell, J. L.; McDowell, W. H.; Scatena, F. N.; Ice, G. G. 2013. Trends in stream nitrogen concentrations for forested reference catchments across the USA. Environmental Research Letters. 8: 014039.

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Baillie, Brenda R.; Neary, Daniel G. 2015. Water quality in New Zealand's planted forests: A review. New Zealand Journal of Forestry Science. 45: 7. doi 10.1186/s40490-015-0040-0.

Baillie, Brenda R.; Neary, Daniel G.; Gous, Stefan; Rolando, Carol A. 2015. Aquatic fate of aerially applied hexazinone and terbuthylazine in a New Zealand planted forest. Journal of Sustainable Watershed Science and Management. 2(1): 118-129.

Barry, Jeffrey J.; Buffington, John M.; King, John G. 2004. A general power equation for predicting bed load transport rates in gravel bed rivers. Water resources research. 40: W10401 (22 p.)

Barry, Jeffrey J.; Buffington, John M.; King, John G. 2005. Reply to comment by Claude Michel on "A general power equation for predicting bed load transport rates in gravel bed rivers". Water resources research. 41(7): W0716 (2 p.)

Battaglia, Mike A.; Rocca, Monique E.; Rhoades, Charles C.; Ryan, Michael G. 2010. Surface fuel loadings within mulching treatments in Colorado coniferous forests. Forest Ecology and Management. 260: 1557-1566.

Bayley, Timothy; Elliot, William; Nearing, Mark A.; Guertin, D. Phillp; Johnson, Thomas; Goodrich, David; Flanagan, Dennis. 2010. Modeling erosion under future climates with the WEPP model. In: Hydrology and sedimentation for a changing future: Existing and emerging issues; Proceedings of the 2nd Joint Federal Interagency Conference [9th Federal interagency sedimentation conference and 4th Federal interagency hydrologic modeling conference]; 27 June - 1 July; Las Vegas, NV. 12 p.

Beechie, T.J., D.A. Sear, J.D. Olden, G.R. Pess, J.M. Buffington, H.J. Moir, P. Roni, and M.M. Pollock. 2010. Process-based principles for restoring river ecosystems. BioScience 60(3): 209-222.

Bellugi, D., D. G. Milledge, W. E. Dietrich, J. A. McKean, J. T. Perron, E. B. Sudderth, and B. Kazian. 2015. A spectral clustering search algorithm for predicting shallow landslide size and location. J. Geophys. Res. Earth Surf. 120, doi:10.1002/2014JF003137.

Bellugi, Dino; Dietrich, William E.; Stock, Jonathan; McKean, Jim; Kazian, Brian; Hargrove, Paul. 2011. Spatially explicit shallow landslide susceptibility mapping over large areas. In: Genevois, R.; Hamilton, D. L.; Prestininzi, A., eds. Proceedings of the 5th International Conference on Debris-Flow Hazards Mitigation: Mechanics, Prediction and Assessment; Padua, Italy; June 7-11, 2011. Rome, Italy: Casa Editrice Universita La Sapienza, Italian Journal of Engineering Geology and Environment-Book. p. 759-768.

Benjankar, Rohan; Tonina, Daniele; Marzadri, Alessandra; McKean, Jim; Isaak, Daniel J. 2016. Effects of habitat quality and ambient hyporheic flows on salmon spawning site selection. Journal of Geophysical Research: Biogeosciences. 121: 1222-1235.

Benjankar, R., Tonina, D., McKean, J., 2014. One-dimensional and two-dimensional hydrodynamic modelling derived flow properties: impacts on aquatic habitat quality predictions. Earth Surface Processes and Landforms, doi: 10.1002/esp.3637.

Binkley, D., F. Suarez, C. Rhoades, R. Stottlemyer, and D.W. Valentine. 1995.  Parent material depth controls ecosystem composition and function on a riverside terrace in northwestern Alaska. Ecoscience 2(4):377-381.

Bisson, Peter A.; Montgomery, David R.; Buffington, John M. 2017. Valley segments, stream reaches, and channel units [Chapter 2]. In: Hauer, F. R.; Lamberti, G. A., eds. Methods in Stream Ecology - Volume 1: Ecosystem Structure (Third Edition). San Diego, CA: Academic Press. p. 21-47.

Bisson, P.A.; Rieman, B.E.; Luce, C.; Hessburg, P.F.; Lee, D.C.; Kershner, J.L.; Reeves, G.H.; Gresswell, R.E. 2003. Fire and aquatic ecosystems of the Western USA: current knowledge and key questions. Forest Ecology and Management. 178: 213-229.

Bisson, Peter A.; Montgomery, David R.; Buffington, John M. 2006. Valley segments, stream reaches, and channel units. In: Hauer, F. R.; Lamberti, G. A., eds. Methods in Stream Ecology. Second Edition. San Diego, CA: Academic Press: 23-49.

Black, Thomas A.; Luce, Charles H. 2013. Measuring water and sediment discharge from a road plot with a settling basin and tipping bucket. Gen. Tech. Rep. RMRS-GTR-287. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 38 p.

Brooks, P., D. McKnight, and K. Elder, 2004, Carbon limitation of soil respiration under winter snowpacks: potential feedbacks between growing season and winter carbon fluxes Global Change Biology, 11, 231-238.

Brookshire, E. N. J. and K. A. Dwire. 2003. Controls on patterns of coarse organic particle retention in headwater streams. Journal of the North American Benthological Society 22(1): 17-34.

Buffington, J. M.; Montgomery, D. R.  2013.  Geomorphic classification of rivers. In: Shroder, J.; Wohl, E., ed. Treatise on Geomorphology; Fluvial Geomorphology, Vol. 9. San Diego, CA: Academic Press. p. 730-767.

Buffington, J.M., 2012. Changes in channel morphology over human time scales. In: Church, M., Biron, P.M., Roy, A.G. (Eds.), Gravel-Bed Rivers: Processes, Tools, Environments. Wiley, Chichester, UK, pp. 435-463.

Buffington, J.M., D.R. Montgomery, and H.M. Greenberg. 2004. Basin-scale availability of salmonid spawning gravel as influenced by channel type and hydraulic roughness in mountain catchments.  Canadian Journal of Fisheries and Aquatic Sciences. 61:2085-2096.  Erratum

Buffington, John M.; Roper, Brett B.; Archer, Eric; Moyer, Chris, 2009. REPLY TO DISCUSSION - The Role of Observer Variation in Determining Rosgen Stream Types in Northeastern Oregon Mountain Streams. Journal of the American Water Resources Association. 45 (5), 1298-1312.

Buffington, John M.; Tonina, Daniele  2009.  Hyporheic exchange in mountain rivers II: Effects of channel morphology on mechanics, scales, and rates of exchange. Geography Compass. 3(3): 1038-1062.

Bunte, Kristin; Abt, Steven R.; Potyondy, John P.; Ryan, Sandra E. 2004. Measurement of coarse gravel and cobble transport using portable bedload traps. Journal of hydraulic engineering. Vol. 130, no. 9 (Sept. 2004): p. 879-893.

Burke, M., K. Jorde, J.M. Buffington, J. Braatne, and R. Benjakar. 2006. Spatial distribution of impacts to channel bed mobility due to flow regulation, Kootenai River, USA. Proceedings of the 8th Federal Interagency Sedimentation Conference, Reno, NV, April 2-6, 2006.

Burke, M., K. Jorde, and J.M. Buffington, published online November 5 2008, Application of a hierarchical framework for assessing environmental impacts of dam operation: changes in hydrology, channel hydraulics, bed mobility and recruitment of riparian trees in a western North American river, Journal of Environmental Management, doi: 10.1016/j.jenvman.2008.1007.0222.

Butler, B. W.; Wagenbrenner, N. S.; Forthofer, J. M.; Lamb, B. K.; Shannon, K. S.; Finn, D.; Eckman, R. M.; Clawson, K.; Bradshaw, L.; Sopko, P.; Beard, S.; Jimenez, D.; Wold, C.; Vosburgh, M. 2015. High-resolution observations of the near-surface wind field over an isolated mountain and in a steep river canyon. Atmospheric Chemistry and Physics. 15: 3785-3801.

Bytnerowicz, A.; O. Badea.; F. Popescu; R. Musselman; M. Tanase; I. Barbu; W. Frączek; N. Gembasu; A. Surdu; F. Danescu; D. Postelnicu; R. Cenusa; C. Vasile. 2005. Air pollution, precipitation chemistry and forest health in the Retazat Mountains, Southern Carpathians, Romania. Environmental Pollution. 137: 546-567.

C

Caamaño, D., P. Goodwin, and J.M. Buffington. 2012. Flow structure through pool-riffle sequences and a conceptual model for their sustainability in gravel-bed rivers. River Research and Applications 28(3): 377-389.

Caamaño, D., P. Goodwin, J.M. Buffington, J.C.P. Liou, and S. Daley-Laursen, 2009, A unifying criterion for the velocity reversal hypothesis in gravel-bed rivers, Journal of Hydraulic Engineering 135(1): 66-70, doi: 10.1061/(ASCE)0733-9429(2009)135:1(66).

Callaham, Mac A., Jr.; Rhoades, Charles C.; Heneghan, Liam 2008. A striking profile: Soil ecological knowledge in restoration management and science. Restoration Ecology. 16(4): 604-607.

Calkin, David E.; Hyde, Kevin D.; Robichaud, Peter R.; Jones, J. Greg; Ashmun, Louise E.; Loeffler Dan. 2007. Assessing post-fire values-at-risk with a new calculation tool. Gen. Tech. Rep. RMRS-GTR-205. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 32 p.

Carim, K. J.; Christianson, K. R.; McKelvey, K. S.; Pate, W. M.; Silver, D. B.; Johnson, B. M.; Galloway, B. T.; Young, M. K.; Schwartz, M. K. 2016. Environmental DNA marker development with sparse biological information: A case study on opossum shrimp (Mysis diluviana). PLoS ONE. 11: e0161664.

Carim, Kellie J.; Dysthe, J. Caleb; Young, Michael K.; McKelvey, Kevin S.; Schwartz, Michael K. 2017. A noninvasive tool to assess the distribution of Pacific lamprey (Entosphenus tridentatus) in the Columbia River basin. PLoS ONE. 12(1): e0169334.

Carim, K. J.; Dysthe, J. C. S.; Young, M. K.; McKelvey, K. S.; Schwartz, M. K. 2016. An environmental DNA assay for detecting Arctic grayling in the upper Missouri River basin, North America. Conservation Genetics Resources. doi: 10.1007/s12686-016-0531-1.

Carim, Kellie J.; McKelvey, Kevin S.; Young, Michael K.; Wilcox, Taylor M.; Schwartz, Michael K. 2016. A protocol for collecting environmental DNA samples from streams. Gen. Tech. Rep. RMRS-GTR-355. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 18 p.

Carnie, Ryan; Tonina, Daniele; McKean, James A.; Isaak, Daniel. 2016. Habitat connectivity as a metric for aquatic microhabitat quality: Application to Chinook salmon spawning habitat. Ecohydrology. 9: 982-994.

Caskey, S.T; Blaschak, T.S.; Wohl, E.; Schnackenberg, E.; Merritt, D.M.; Dwire, K.A. 2014. Downstream effects of stream flow diversion on channel characteristics and riparian vegetation in the Colorado Rocky Mountains, USA. Earth Surface Processes and Landforms. doi: 10.1002/esp.3651.

Clifton, Caty F.; Day, Kate T.; Dello, Kathie; Grant, Gordon E.; Halofsky, Jessica E.; Isaak, Daniel J.; Luce, Charles H.; Safeeq, Mohammad; Staab, Brian P.; Stevenson, John. 2017. Climate change and hydrology in the Blue Mountains [Chapter 3]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 25-52.

Clifton, Caty F.; Day, Kate T.; Grant, Gordon E.; Halofsky, Jessica E.; Luce, Charles H.; Staab, Brian P. 2017. Climate change, water resources, and roads in the Blue Mountains [Chapter 4]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 53-90.

Cline, D., K. Elder, B. Davis, J. Hardy, G.E. Liston, D. Imel, S.H. Yueh, A.J. Gasiewski, G. Koh, R.L. Armstrong, M. Parsons, Overview of the NASA cold land processes field experiment (CLPX-2002), Proc. Int. Symp., 2002 October 24-25, China, Soc. of Photo-Opt. Instrumentation Engineers, Vol. 4894: 361-372, 2003.

Clow, David W.; Rhoades, Charles C.; Briggs, Jennifer; Caldwell, Megan; Lewis, William M., Jr. 2011. Responses of soil and water chemistry to mountain pine beetle induced tree mortality in Grand County, Colorado, USA. Applied Geochemistry. 26: S174-S178.

Collins, B. J.; Rhoades, C. C.; Battaglia, M. A.; Hubbard, R. M. 2012. The effects of bark beetle outbreaks on forest development, fuel loads and potential fire behavior in salvage logged and untreated lodgepole pine forests. Forest Ecology and Management. 284: 260-268.

Collins, B.J.; Rhoades, C.C.; Hubbard, R.M.; Battaglia, M.A. 2011. Tree regeneration and future stand development after bark beetle infestation and harvesting in Colorado lodgepole pine stands. Forest Ecology and Management. 261: 2168–2175.

Collins, Byron J.; Rhoades, Charles C.; Underhill, Jeffrey; Hubbard, Robert M. 2010. Post-harvest seedling recruitment following mountain pine beetle infestation of Colorado lodgepole pine stands: A comparison using historic survey records. Canadian Journal of Forest Research. 40: 2452-2456.

Conroy, W. J.; Hotchkiss, R. H.; Elliot, W. J. 2006. A coupled upland-erosion and instream hydrodynamic-sediment transport model for evaluating sediment transport in forested watersheds. Transactions of the American Society of Agricultural and Biological Engineers. 49(6): 1-10.

Cooke, Brian; Battaglia, Mike; Dwire, Kathleen; Isaak, Dan; Joyce, Linda; Merritt, David; Oropeza, Jill; Regan, Claudia; Reynolds, Lindsay; Rice, Janine; Schillie, Trey. 2018. Warming and warnings: Assessing climate change vulnerability in the Rocky Mountain Region. Science You Can Use Bulletin, Special General Technical Report Companion. Fort Collins, CO: Rocky Mountain Research Station. 15 p.

Cooke, Brian; Elliot, Bill; Miller, Mary Ellen; Finney, Mark; Thompson, Matthew. 2016. Protecting the source: Tools to evaluate fuel treatment cost vs. water quality protection. Science You Can Use Bulletin, Issue 21. Fort Collins, CO: Rocky Mountain Research Station. 9 p.

Copeland, N.S., Sharratt, B.S., Wu, J.Q., Foltz, R.B., Dooley, J.H., 2009. A wood-strand material for wind erosion control: effects on total sediment loss, PM10 vertical flux, and PM10 loss. J. Environ. Qual. 37:1–10. doi: 10.2134/jeq2008.0115.

Cotrufo, M. Francesca; Boot, Claudia M.; Kampf, Stephanie; Nelson, Peter A.; Brogan, Daniel J.; Covino, Tim; Haddix, Michelle L.; MacDonald, Lee H.; Rathburn, Sarah; Ryan-Burkett, Sandra; Schmeer, Sarah; Hall, Ed. 2016. Redistribution of pyrogenic carbon from hillslopes to stream corridors following a large montane wildfire. Global Biogeochemical Cycles. 30: 1348-1355.

D

Dattilo, Adam J.; Rhoades, Charles C. 2005. Establishment of the woody grass Arundinaria gigantea for riparian restoration. Restoration Ecology. 13(4): 616-622.

Dattilo, A.J. and C.C. Rhoades. 2005. River cane (Arundinaria gigantea) establishment for riparian restoration in Central Kentucky. Restoration Ecology 13:615-621.

Deems, J., S. R. Fassnacht, and K. Elder, 2006, Fractal distribution of snow depth from LiDAR data, J. Hydromet., 7, 285-297.

Dietrich, W.E., McKean, J., Bellugi, D., Perron, T., 2007. The prediction of shallow landslide location and size using a multidimensional landslide analysis in a digital terrain model. 4th Intl. Debris Flow Conf., Chengdu, China. Sept. 10-13.

Dillon, Gregory K.; Holden, Zachery A.; Morgan, Penelope; Crimmins, Michael A.; Heyerdahl, Emily K.; Luce, Charles H. 2011. Both topography and climate affected forest and woodland burn severity in two regions of the western US, 1984 to 2006. Ecosphere. 2(12): 130. doi: 10.1890/ES11-00271.1.

Douglas P. Peterson, Bruce E. Rieman, Michael K. Young, and James A. Brammer. 2010. Modeling predicts that redd trampling by cattle may contribute to population declines of native trout. Ecological Applications. 20:954–966.

Dun, S.; J.Q. Wu; W.J. Elliot; P.R. Robichaud; D.C. Flanagan. 2006. Adapting the Water Erosion Prediction Project (WEPP) model to forest conditions. Written for presentation at the 2006 ASABE Annual International Meeting. Sponsored by ASABE, Portland Convention Center, Portland, OR. 9 - 12 July 2006. ASABE Paper No. 062150. American Society of Agricultural and Biological Engineers.

Dunham, J.B., B.E. Rieman, and G.L. Chandler. 2001. Development of field-based models of suitable thermal regimes for interior Columbia Basin salmonids. Final Report to U.S. Environmental Protection Agency, Seattle, WA. Interagency Agreement #00-IA-11222014-521.

Dunham, J., B. Rieman and G. Chandler.  2003.  Influences of temperature and environmental variables on the distribution of bull trout within streams at the southern margin of its range.  North American Journal of Fisheries Management 23:894-904.

Dunham, J., G. Chandler, B. Rieman, and D. Martin.  2005.  Measuring stream temperature with digital data loggers: A user's guide.  General Technical Report.  RMRSGTR-150WWW.  Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station.  15pp.

Dunham, J.B., A.E. Rosenberger, C.H. Luce, and B.R. Rieman. 2007. Influences of wildfire and channel reorganization on spatial and temporal variation in stream temperature and the distribution of fish and amphibians. Ecosystems. 10:335-346.

Dunham, Jason B.; Chandler, G. L. 2001. Models to predict suitable habitat for juvenile bull trout in Washington state. Boise, ID: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. Final Report for cooperative agreement #134100H001. 75 p.

Dutra, Emanuel; Balsamo, Gianpaolo; Viterbo, Pedro; Miranda, Pedro M. A.; Beljaars, Anton; Schar, Christoph; Elder, Kelly. 2010: An improved snow scheme for the ECMWF land surface model: Description and offline validation. Journal of Hydrometeorology. 11: 899-916.

Dwire, K.A.; Hubbard, R.; Bazan, R. 2015. Comparison of riparian and upland forest stand structure and fuel loads in beetle infested watersheds, southern Rocky Mountains. Forest Ecology and Management. 335 (2015) 194-206. doi:10.1016/j.foreco.2014.09.039.

Dwire, K. A. and J. B. Kauffman. 2003. Fire and riparian ecosystems in landscapes of the western USA. Forest Ecology and Management 178 (1-2): 61-74.

Dwire, K. A., J. B. Kauffman, and J. Baham. 2006. Plant species distribution in relation to water table depth and soil redox potential in montane riparian meadows. Wetlands 26 (1): 131 – 146.

Dwire, K. A., J. B. Kauffman, E. N. J. Brookshire and J. Baham. 2004. Plant biomass and species composition along an environmental gradient in montane riparian meadows. Oecologia 139(2): 309-317.

Dwire, Kathleen A.; Mellmann-Brown, Sabine. 2017. Climate change and special habitats in the Blue Mountains: Riparian areas, wetlands, and groundwater-dependent ecosystems [Chapter 7]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 251-323.

Dwire, Kathleen A.; Meyer, Kristen E.; Riegel, Gregg; Burton, Timothy. 2016. Riparian fuel treatments in the western USA: Challenges and considerations. Gen. Tech. Rep. RMRS-GTR-352. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 156 p. | Stream Notes (The Technical Newsletter of the National Stream and Aquatic Ecology Center) May 2017 Issue.

Dwire, Kathleen A.; Ryan, Sandra E.; Shirley, Laura J.; Lytjen, Danna; Otting, Nick; Dixon, Mark K. 2006. Influence of herbivory on regrowth of riparian shrubs following a wildland fire. Journal of the American Water Resources Association. 42 (1): 201-212.g

Dwire, K.A., C.C. Rhoades, and M.K. Young. 2006. Potential effects of fuel management activities on riparian areas. Elliot, W.J. and Audin, L.J., (Eds.). Cumulative Watershed Effects of Fuels Management in the Western United States.

Dysthe JC, Carim KJ, Franklin TW, Kikkert D, Young MK, McKelvey KS, Schwartz MK. 2018. Molecular detection of northern leatherside chub (Lepidomeda copei) DNA in environmental samples. Northwest Science, 78, 92–99.

Dysthe, Joseph C.; Carim, Kellie J.; Paroz, Yvette M.; McKelvey, Kevin S.; Young, Michael K.; Schwartz, Michael K. 2016. Quantitative PCR assays for detecting loach minnow (Rhinichthys cobitis) and spikedace (Meda fulgida) in the southwestern United States. PLoS One. 11: e0162200.

Dysthe, Joseph C.; Carim, Kellie J.; Ruggles, Michael; McKelvey, Kevin S.; Young, Michael K.; Schwartz, Michael K. 2017. Environmental DNA assays for the sister taxa aauger (Sander canadensis) and walleye (Sander vitreus). PLoS ONE 12: e0176459.

Dysthe, Joseph C.; Rodgers, Torrey; Franklin, Thomas W.; Carim, Kellie J.; Young, Michael K.; McKelvey, Kevin S.; Mock, Karen, E.; Schwartz, Michael K. . 2018. Repurposing environmental DNA samples—detecting the western pearlshell (Margaritifera falcata) as a proof of concept. Ecology and Evolution. 00:1–12. DOI: 10.1002/ece3.3898.

E

Eiriksson, David; Whitson, Michael; Luce, Charles H.; Marshall, Hans Peter; Bradford, John; Benner, Shawn G.; Black, Thomas; Hetrick, Hank; McNamara, James P.  2013.  An evaluation of the hydrologic relevance of lateral flow in snow at hillslope and catchment scales. Hydrological Process. 27: 640-654.

Elder, K., K. Dwire, R. Hubbard, C. Rhoades, S. Ryan, M. Young, L. Porth, M. Dixon and A. Goodbody, 2006, Disturbance and water related research in the western United States, Proc. of Sec. Interagency Conf., Research in the Watersheds, May 16-18, 2006, Coweeta Hydrological Lab, Otto, North Carolina.

Elliot, William J. 2016. Development of online tools to support GIS watershed analyses. StreamNotes, August 2016. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, National Stream and Aquatic Ecology Center. p. 8-10.

Elliot, W. J.  2007.  Predicting background and risk-based sedimentation for forest watershed TMDLs.  Proc of the 10-14 March 2007 Conference on Watershed Management to Meet Water Quality Standards and TMDLs (Total Maximum Daily Loads).  St. Joseph, MI: ASABE.  109-115.

Elliot, W. J., P. R. Robichaud and I. S. Miller.  2007.  Erosion rates from forests and rangelands following fuel management.  Proc of the 10-14 March 2007 Conference on Watershed Management to Meet Water Quality Standards and TMDLs (Total Maximum Daily Loads).  St. Joseph, MI: ASABE.  493-499.

Elliot, W., Hyde, K., MacDonald, L., McKean, J., 2006. Tools for Analysis of CWE of Fuel Management. In, Elliot, W.J. and Audin, L.J., (eds.). Cumulative Watershed Effects of Fuels Management in the Western United States.

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Fausch, K.D., Rieman, B.E., Dunham, J.B., Young, M.K. and Peterson, D.P.  2009 .The invasion versus isolation dilemma: tradeoffs in managing native salmonids with barriers to upstream movement.  Conservation Biology 23(4):859-870. Published Online: February 6, 2009.  DOI: 10.1111/j.1523-1739.2008.01159.x

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Ferguson, Sue A, McKay, Steven J., Nagel, David E., Piepho, Trent, Rorig, Miriam L., Anderson, Casey, Kellog, Lara, 2003.  Assessing Values of Air Quality and Visibility at Risk from Wildland Fires. Research Paper PNW-RP-550.  USDA Forest Service, Pacific Northwest Research Station, April 2003.

Ffolliott, Peter F.; Stropki, Cody L.; Chen, Hui; Neary, Daniel G.  2011.  The 2002 Rodeo-Chediski Wildfire's impacts on southwestern ponderosa pine ecosystems, hydrology, and fuels. Res. Pap. RMRS-RP-85. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 36 p.

Foltz, R. B. 2012. A comparison of three erosion control mulches on decommissioned forest road corridors in the northern Rocky Mountains, United States. Journal of Soil and Water Conservation. 67(6):536-544.

Foltz, Randy B.; Copeland, Natalie S. 2009. Evaluating the efficacy of wood shreds for mitigating erosion. Journal of Environmental Management. 90: 779-785.

Foltz, R.B.; Copeland, N.S. 2007. Field testing of wood-based biomass erosion control materials on obliterated roads. 2007. ASABE Annual International Meeting. Paper No: 078046. Minneapolis, MN, 17-20 June 2007. July 2007.

Foltz, R. B.; Rhee, H.; Yanosek, K. A. 2007. Infiltration, erosion, and vegetation recovery following road obliteration. Transactions of ASABE. 50(6): 1937-1943.

Foltz, Randy B.; Yanosek, Kristina A.; Brown, Timothy M. 2008. Sediment concentration and turbidity changes during culvert removals. Journal of Environmental Management. 87(3): 329-340.

Foltz, R. B.; Copeland, N. S.; Elliot, W. J. 2009. Reopening abandoned forest roads in northern Idaho, USA: Quantification of runoff, sediment concentration, infiltration, and interrill erosion parameters. Journal of Environmental Management. 90: 2542-2550.

Foltz, R. B.; Wagenbrenner, N. S. 2010. An evaluation of three wood shred blends for post-fire erosion control using indoor simulated rain events on small plots. Catena. 80: 86-94.

Foltz, Randy B.; Westfall, Breann; Kopyscianski, Ben 2013. Turbidity changes during culvert to bridge upgrades at Carmen Creek, Idaho. Res. Note RMRS-RN-54. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 12 p.

Foltz, Randy B.; Westfall, Breann; Kopyscianski, Ben. 2012. Turbidity changes during culvert to bridge upgrades at Carmen Creek, Idaho. Report to Bureau of Land Management; FFIS Agreement 2216-07-IA287. Washington, DC: U.S. Department of the Interior, Bureau of Land Management. 8 p.

Fornwalt, Paula J.; Rhoades, Charles C. 2011. Rehabilitating slash pile burn scars in upper montane forests of the Colorado Front Range. Natural Areas Journal. 31(2): 177-182.

Fornwalt, Paula J.; Rocca, Monique E.; Battaglia, Mike A.; Rhoades, Charles C.; Ryan, Michael G. 2017. Mulching fuels treatments promote understory plant communities in three Colorado, USA, coniferous forest types. Forest Ecology and Management. 385: 214-224.

Franklin, Thomas W.; Dysthe, Joseph C.; Rubenson, Erika S.; Carim, Kellie J.; Olden, Julian D.; McKelvey, Kevin S.; Young, Michael K.; Schwartz, Michael K. 2018. A non-invasive sampling method for detecting non-native smallmouth bass (Micropterus dolomieu). Northwest Science. 92(2): 149-157.

Furniss, M.; Clifton, C.; Ronnenberg, K. eds. 2007. Advancing the Fundamental Sciences: Proceedings of the Forest Service National Earth Sciences Conference, San Diego, CA, 18-22 October 2004. Gen. Tech. Rep. PNW-GTR-689. Portland, OR: U.S. Forest Service, Pacific Northwest Research Station. 577 p.

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Garcia-Chevesich, Pablo A.; Neary, Daniel G.; Scott, David F.; Benyon, Teresa Reyna, eds. 2017. Forest management and the impact on water resources: A review of 13 countries. IHP - VIII / Technical Document No. 37. Paris, France: United Nations Educational, Scientific, and Cultural Organization (UNESCO), International Hydrological Program. 203 p.

Gariglio, Frank P.; Tonina, Daniele; Luce, Charles H. 2013. Spatio-temporal variability of hyporheic exchange through a pool-riffle-pool sequence. Water Resources Research. Accepted paper. doi: 10.1002/wrcr.20419.

Giardina, C.P. and C.C. Rhoades. 2001.  Clear cutting and burning affect nitrogen supply, phosphorus fractions and seedling growth in soils from a Wyoming lodgepole pine forest. Forest Ecology and Management 140:19-28.

Goode, Jaime R.; Luce, Charles H.; Buffington, John M. 2012. Enhanced sediment delivery in a changing climate in semi-arid mountain basins: Implications for water resource management and aquatic habitat in the northern Rocky Mountains. Geomorphology. 139-140: 1-15.

Goode, Jaime R.; Buffington, John M.; Tonina, Daniele; Isaak, Daniel J.; Thurow, Russell F.; Wenger, Seth; Nagel, David; Luce, Charlie; Tetzlaff, Doerthe; Soulsby, Chris 2013. Potential effects of climate change on streambed scour and risks to salmonid survival in snow-dominated mountain basins. Hydrological Processes. 27: 750-765.

Goode, Jaime R.; Wohl, Ellen 2010. Substrate controls on the longitudinal profile of bedrock channels: Implications for reach-scale roughness. Journal of Geophysical Research-Earth Surface. 115: F03018. doi:10.1029/2008JF001188.

Gorsevski, P.V., P.E. Gessler, R.B. Foltz, and W.J. Elliot.  2006.  Spatial Prediction of Landslide Hazard Using Logistic Regression and ROC Analysis. Transactions in GIS, 10(3): 395-415.

Gottfried, G.J.; Neary, D.G.; Ffolliott, P.F.; Decker, D.D. 2007. Impacts of a high-intensity summer rainstorm on two small oak savanna watersheds in the southwestern borderlands. Hydrology and Water Resources in Arizona and the Southwest 36:67-73.

Gould Gregory K.; Liu, Mingliang; Barber, Michael E.; Cherkauer, Keith A.; Robichaud, Peter R.; Adam, Jennifer C. 2016. The effects of climate change and extreme wildfire events on runoff erosion over a mountain watershed. Journal of Hydrology. 536: 74-91.

Guzevich, John W.; Thurow, Russell F. 2017. Fine-scale characteristics of fluvial bull trout reeds and adjacent sites in Rapid River, Idaho, 1993-2007. Northwest Science. 91(2): 198-213. http://dx.doi.org/10.3955/046.091.0209.

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Hakamada, Rodrigo; Hubbard, Robert M.; Ferraz, Silvio; Stape, Jose Luiz; Lemos, Cristiane. 2017. Biomass production and potential water stress increase with planting density in four highly productive clonal Eucalyptus genotypes. Southern Forests: A Journal of Forest Science. 79(3): 251-257. doi: 10.2989/20702620.2016.1256041.

Heneghan, Liam; Miller, Susan P.; Baer, Sara; Callaham, Mac A., Jr.; Montgomery, James; Pavao-Zuckerman, Mitchell; Rhoades, Charles C.; Richardson, Sarah 2008. Integrating soil ecological knowledge into restoration management. Restoration Ecology. 16(4): 608-617.

Hill, B.H., R.K Kolka, F.H. McCormick and M.A. Starry. 2013. A synoptic survey of ecosystem services from headwater catchments in the United States.  Ecosystem Services.

Hill, Brian H.; McCormick, Frank H.; Harvey, Bret C.; Johnson, Sherri L.; Warren, Melvin L.; Elonen, Colleen M. 2010. Microbial enzyme activity, nutrient uptake and nutrient limitation in forested streams. Freshwater Biology. 55: 1005-1019.

Hines, Sarah; Brenkert-Smith, Hannah; Champ, Patty; Joyce, Linda; Jeff Lukas; Robichaud, Pete; Ryan-Burkett, Sandra. 2014. Our relationship with a dynamic landscape: Understanding the 2013 Northern Colorado Flood. Science You Can Use Bulletin, Issue 10. Fort Collins, CO: Rocky Mountain Research Station. 15 p.

Holsinger, Lisa; Keane, Robert E.; Isaak, Daniel J.; Eby, Lisa; Young, Michael K. 2014. Relative effects of climate change and wildfires on stream temperatures: A simulation modeling approach in a Rocky Mountain watershed. Climatic Change. 124: 191-206. DOI 10.1007/s10584-014-1092-5.

Homan, J. W., Luce, C. H., McNamara, J. P. and Glenn, N. F., 2011, Improvement of distributed snowmelt energy balance modeling with MODIS-based NDSI-derived fractional snow-covered area data. Hydrological Processes, 25: 650–660. doi: 10.1002/hyp.7857.

Hood, Paul R.; Nelson, Kellen N.; Rhoades, Charles C.; Tinker, Daniel B. 2017. The effect of salvage logging on surface fuel loads and fuel moisture in beetle-infested lodgepole pine forests. Forest Ecology and Management. 390: 80-88.

Hubbard, R. M., B. J. Bond, R. Senock and M.G. Ryan. 2002. Effects of branch height on leaf gas exchange, branch hydraulic conductance and branch sap flux in open-grown ponderosa pine. Tree Physiology 22: 575-581.

Hubbard, R. M., V. Stiller, M.G. Ryan and J.S. Sperry. 2001. Stomatal conductance and photosynthesis vary linearly with plant hydraulic conductance in ponderosa pine. Plant, Cell and Environment 24: 113-121.  

Hubbard, R.M., J.M. Vose, B.D. Clinton, K.J. Elliott, and J.D. Knoepp. 2004. Stand restoration burning in oak-pine forests in the southern Appalachians: effects on aboveground biomass and carbon and nitrogen cycling. Forest Ecology and Management 190:311-321.

Hubbard, R.M., M.G. Ryan, C.P. Giardina and H.R. Barnard. 2004. The effect of fertilization on sap flux and canopy conductance in a Eucalyptus saligna experimental forest. Global Change Biology 10: 427-436.

Hubbard, R.M., M.G. Ryan, K. Elder, and C.C. Rhoades. 2005. Seasonal patterns in soil surface CO2 flux under snow cover in 50 and 300 year old subalpine forests. Biogeochemistry 73:93-107.

Hubbard, Robert M.; Rhoades, Charles C.; Elder, Kelly; Negron, Jose 2013. Changes in transpiration and foliage growth in lodgepole pine trees following mountain pine beetle attack and mechanical girdling. Forest Ecology and Management. 289: 312-317.

Hubbart, J. A., T. E. Link, J. A Gravelle, and W. J. Elliot.  2007.  Timber harvest impacts on water yield in the continental/maritime hydroclimate region of the U.S.  Journal of Forestry 53(2):169-180.

I

Ice, G.G.; Neary, D.G.; Adams, P.W. 2004. Effects of wildfire on soils and watershed processes. Journal of Forestry. 102:16-20.

Isaak, D.J. 2014. Blogging fish science. Fisheries 39:575.

Isaak, Daniel J. 2014. Climate change and the future of freshwater fisheries. In: Taylor, William W.; Lynch, Abigail J.; Leonard, Nancy J., eds. Future of Fisheries: Perspectives for the Next Generation of Professionals. Bethesda, MD: American Fisheries Society. Online: https://fisheries.org/shop/55073p

Isaak, D.J. 2011. Stream Temperature Monitoring and Modeling: Recent Advances and New Tools for Managers. Stream Notes. Stream Systems Technology Center. July 2011. 7 p.

Isaak, D.J., and D.L. Horan. 2011. An assessment of underwater epoxies for permanently installing temperature sensors in mountain streams. North American Journal of Fisheries Management 31:134-137.

Isaak, D.J., C. Luce, D. Horan, G. Chandler, S. Wollrab, and D. Nagel. 2018. Global warming of salmon and trout rivers in the northwestern U.S.: Road to ruin or path through purgatory? Transactions of the American Fisheries Society 147 DOI:10.1002/tafs.10059.

related poster: Global warming of salmon and trout rivers in the northwestern U.S.: Road to ruin or path through purgatory?

related briefing paper: Fishing for Climate Data: How Recent Research is Helping to Forecast Changes in Salmon and Trout Habitat

Isaak, Daniel J.; Thurow, Russell F. 2006. Network-scale spatial and temporal variation in Chinook salmon (Oncorhynchus tshawytscha) redd distributions: patterns inferred from spatially continuous replicate surveys. Canadian Journal of Fisheries and Aquatic Sciences. 63(2): 285-296.

Isaak, D.J., R.F. Thurow, B.E. Rieman, and J.B. Dunham.  2007.  Chinook salmon use of spawning patches:  relative roles of habitat quality, size, and connectivity.  Ecological Applications.  17(2):352-364.

Isaak, Daniel J.; Ramsey, Katherine; Chatel, John C.; Konnoff, Deborah L.; Gecy, Robert A.; Horan, Dona. 2017. Climate change, fish, and aquatic habitat in the Blue Mountains [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 91-148.

Isaak, Dan; Rieman, Bruce; Horan, Dona. 2009. A watershed-scale monitoring protocol for bull trout. Gen. Tech. Rep. RMRS-GTR-224. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 25 p.

Related website: Multiple Regression Stream Temperature Model -  with data, maps, methods and related publications

Isaak, Daniel J.; Horan, Dona L.; Wollrab, Sherry P.  2013. A simple protocol using underwater epoxy to install annual temperature monitoring sites in rivers and streams. Gen. Tech. Rep. RMRS-GTR-314. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 21 p.

Isaak, Daniel J.; Luce, Charles H.; Chandler, Gwynne L.; Horan, Dona L.; Wollrab, Sherry P. 2018. Principle components of thermal regimes in mountain river networks. Hydrology and Earth Systems Sciences. 22: 6225-6240.

Isaak, D.J., C. Luce, D. Horan, G. Chandler, S. Wollrab, and D. Nagel. 2018. Global warming of salmon and trout rivers in the northwestern U.S.: Road to ruin or path through purgatory? Transactions of the American Fisheries Society 147: 566-587. DOI:10.1002/tafs.10059.

Isaak, Daniel J.; Luce, Charles H.; Rieman, Bruce E.; Nagel, David E.; Peterson, Erin E.; Horan, Dona L.; Parkes, Sharon; Chandler, Gwynne L. 2010. Effects of climate change and wildfire on stream temperatures and salmonid thermal habitat in a mountain river network. Ecological Applications. 20(5): 1350-1371.

Appendices

Related website: Spatial Statistical Stream Temperature Model -  with data, maps, methods and related presentations and publications

Isaak, Daniel J.; Muhlfeld, Clint C.; Todd, Andrew S.; Al-Chokhachy, Robert; Roberts, James; Kershner, Jeffrey L.; Fausch, Kurt D.; Hostetler, Steven W. 2012. The past as prelude to the future for understanding 21st-Century climate effects on Rocky Mountain trout. Fisheries. 37(12): 542-556.

Isaak, Daniel J.; Ramsey, Katherine; Chatel, John C.; Konnoff, Deborah L.; Gecy, Robert A.; Horan, Dona. 2017. Climate change, fish, and aquatic habitat in the Blue Mountains [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L., eds. Climate change vulnerability and adaptation in the Blue Mountains. Gen. Tech. Rep. PNW-GTR-939. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. p. 91-148.

Isaak, Daniel J.; Rieman, Bruce E. 2013. Stream isotherm shifts from climate change and implications for distributions of ectothermic organisms. Global Change Biology. 19: 742-751.

Isaak, Daniel J.; Ver Hoef, Jay M.; Peterson, Erin E.; Horan, Dona L.; Nagel, David E. 2017. Scalable population estimates using spatial-stream-network (SSN) models, fish density surveys, and national geospatial database frameworks for streams. Canadian Journal of Fisheries and Aquatic Sciences. 74: 147-156.

Isaak, D., S. Wenger, E. Peterson, J. Ver Hoef, D. Nagel, C. Luce, S. Hostetler, J. Dunham, B. Roper, S. Wollrab, G. Chandler, D. Horan, S. Parkes-Payne. 2017. The NorWeST summer stream temperature model and scenarios for the western U.S.: A crowd-sourced database and new geospatial tools foster a user community and predict broad climate warming of rivers and streams. Water Resources Research, 53: 9181-9205. https://doi.org/10.1002/2017WR020969.

Isaak, Daniel J.; Wenger, Seth J.; Young, Michael K. 2017. Big biology meets microclimatology: Defining thermal niches of ectotherms at landscape scales for conservation planning. Ecological Applications. doi: 10.1002/eap.1501.

Isaak, D. J.; Wollrab, S.; Horan, D.; Chandler, G. 2011. Climate change effects on stream and river temperatures across the northwest U.S. from 1980-2009 and implications for salmonid fishes. Climatic Change. 113: 499-524.

Isaak, Daniel J.; Young, Michael K.; Luce, Charles H.; Hostetler, Steven W.; Wenger, Seth J.; Peterson, Erin E.; Ver Hoef, Jay M.; Groce, Matthew C.; Horan, Dona L.; Nagel, David E. 2016. Slow climate velocities of mountain streams portend their role as refugia for cold-water biodiversity. PNAS. 113(16): 4374-4379.

Isaak, Daniel J.; Young, Michael K.; McConnell, Callie; Roper, Brett B.; Archer, Eric K.; Staab, Brian; Hirsch, Christine; Nagel, David E.; Schwartz, Michael K.; Chandler, Gwynne L. 2018. Crowd-sourced databases as essential elements for Forest Service partnerships and aquatic resource conservation. Fisheries. 43(9): 423-430.

Isaak, D.J., M.K. Young, D. Nagel, and D. Horan. 2014. Cold water as a climate shield to preserve native trout through the 21st Century. Pages 110 - 116 in R. F. Carline and C. LoSapio, editors. Wild Trout XI: Looking Back and Moving Forward. Wild Trout Symposium, Bozeman, Montana. 392 pages.

Isaak, D., M. Young, D. Nagel, D. Horan, and M. Groce. 2015. The cold-water climate shield: Delineating refugia for preserving salmonid fishes through the 21st Century. Global Change Biology. 21:2540-2553.

Related Website: Climate Shield Cold-Water Refuge Streams for Native Trout

Isaak, Daniel J.; Young, Michael K.; Tait, Cynthia; Duffield, Daniel; Horan, Dona L.; Nagel, David E.; Groce, Matthew C. 2018. Effects of climate change on native fish and other aquatic species [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L.; Ho, Joanne J.; Little, Natalie, J.; Joyce, Linda A., eds. Climate change vulnerability and adaptation in the Intermountain Region [Part 1]. Gen. Tech. Rep. RMRS-GTR-375. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. p. 89-111.

Istanbulluoglu, E., D. G. Tarboton, R. T. Pack, and C. H. Luce. 2004. Modeling of the interactions between forest vegetation, disturbances, and sediment yields.  Journal of Geophysical Research, 109, F01009, doi:10.1029/2003JF000041.

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Leasure, Douglas R.; Wenger, Seth J.; Chelgren, Nathan D.; Neville, Helen M.; Dauwalter, Daniel C.; Bjork, Robin; Fesenmyer, Kurt A.; Dunham, Jason B.; Peacock, Mary M.; Luce, Charlie H.; Lute, Abby C.; Isaak, Daniel J. 2018. Hierarchical multi-population viability analysis. Ecology. doi: 10.1002/ecy.2538.

Lentile, L.; Morgan, P.; Hardy, C.; Hudak, A.; Means, R.; Ottmar, R.; Robichaud, P.; Kennedy Sutherland, E.; Szymoniak, J.; Way, F.; Fites-Kaufman, J.; Lewis, S.; Mathews, E.; Shovik, H.; Ryan, K. 2007. Value and challenges of conducting rapid response research on wildland fires . Gen. Tech. Rep. RMRS-GTR-193. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 11 p.

Lewis, S.A.; J.Q. Wu; P.R. Robichaud. 2005. Assessing burn severity and comparing soil water repellency, Hayman Fire, Colorado. Hydrological Processes 20: 1-16.

Lewis, S.A.; Robichaud, P.R.; Frazier, B.E.; Wu, J.Q.; Laes, D.Y.M. 2008. Using hyperspectral imagery to predict post-wildfire soil water repellency. Geomorphology 95:192-205.

Lewis, Sarah A.; Lentile, Leigh B.; Hudak, Andrew T.; Robichaud, Peter R.; Morgan, Penelope; Bobbitt, Michael J. 2007. Mapping ground cover using hyperspectral remote sensing after the 2003 Simi and Old wildfires in southern California. Fire Ecology. 3(1):109-128.

Lisle, T., J.M. Buffington, P.R. Wilcock, and K. Bunte. 2015. Can rapid assessment protocols be used to judge sediment impairment in gravel-bed streams? A commentary. Journal of the American Water Resources Association. 51(2): 373-387.

Liston, Glen E.; Elder, Kelly. 2006. A distributed snow-evolution modeling system (SnowModel). Journal of Hydrometeorology. 7(6): 1259-1276.

Liston, Glen E.; Elder, Kelly 2006. A meteorological distribution system for high-resolution terrestrial modeling (MicroMet). Journal of Hydrometeorology. 7(April): 217-234.

Liu, X.; Wu, J. Q.; Conrad, P. W.; Dun, S.; Todd, C. S.; McNearny, R. L.; Elliot, W. J.; Rhee, H.; Clark, P. 2016. Impact of surface coal mining on soil hydraulic properties. Transactions of the Society for Mining, Metallurgy and Exploration. 338: 381-392.

Luce, C.H., Abatzoglou, J.T. and Holden, Z.A., 2013. The Missing Mountain Water: Slower Westerlies Decrease Orographic Enhancement in the Pacific Northwest USA. Science, 342(6164): 1360-1364.

Luce, Charles; Morgan, Penny; Dwire, Kathleen; Isaak, Daniel; Holden, Zachary; Rieman, Bruce 2012. Climate change, forests, fire, water, and fish: Building resilient landscapes, streams, and managers. Gen. Tech. Rep. RMRS-GTR-290. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 207 p.

Luce, C. H., Tarboton, D. G. 2004. The application of depletion curves for parameterization of subgrid variability of snow. Hydrological processes. 18(8): 1409-1422

Luce, Charles H.; Tarboton, David G.; Istanbulluoglu, Erkan; Pack, Robert T. 2005. Reply to comment by Jonathan J. Rhodes on "Modeling of the interactions between forest vegetation, disturbances, and sediment yields". Journal of geophysical research. 110(F1): F01013 (3 p.)

Luce, Charles H.; Tonina, Daniele; Gariglio, Frank; Applebee, Ralph 2013. Solutions for the diurnally forced advection-diffusion equation to estimate bulk fluid velocity and diffusivity in streambeds from temperature time series. Water Resources Research. 49: 1-9.

Luce, C. H.; Tarboton, D. G. 2010. Evaluation of alternative formulae for calculation of surface temperature in snowmelt models using frequency analysis of temperature observations. Hydrology and Earth System Sciences. 14: 535-543.

Luce, Charles; Staab, Brian; Kramer, Marc; Wenger, Seth; Isaak, Dan; McConnell, Callie. 2014. Sensitivity of summer stream temperatures to climate variability in the Pacific Northwest. Water Resources Research. doi: 10.1002/2013WR014329.

Lugo, Ariel D.; Swanson, Frederick J.; González, Olga Ramos; Adams, Mary Beth; Palik, Brian; Thill, Ronald E.; Brockway, Dale G.; Kern, Christel; Woodsmith, Richard; Musselman, Robert. 2006. Long-term research at the USDA Forest Service''s experimental forests and ranges. BioScience. 56(1): 39-48

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Magaña, H.A., and Villareal, T.A. 2006. The effects of environmental factors on the growth rate of Karenia brevis (Davis) G. Hansen and Moestrup. Harmful Algae, 5:192-198.

Magaña, H.A., Contreras, C., and Villareal, T.A. 2003. A historic assessment of Karenia brevis in the Western Gulf of Mexico. Harmful Algae, 2:163-171.

Marzadri, Alessandra; Tonina, Daniele; McKean, James A.; Tiedemann, Matt. 2012. Hyporheic exchange along a river below a dam. In: Mader, Helmut; Kraml, Julia, eds. Proceedings of the 9th International Symphosium on Ecohydraulics (ISE 2012); Vienna, Austria; 17-21 September 2012. Vienna, Austria: Institute of Water Management, Hydrology and Hydraulic Engineering. Online: http://www.ise2012.boku.ac.at/papers/16945_2.pdf.

Marzadri, A., Tonina, D., McKean, J., Tiedemann, M.G., Benjankar, R.M., 2014. Multi-scale streambed topographic and discharge effects on hyporheic at the stream network scale in confined streams. Journal of Hydrology, 519 Part B, pp. 1997-2011.

Maturana, Oscar; Tonina, Daniele; McKean, James A.; Buffington, John M.; Luce, Charles H.; Caamano, Diego. 2013. Modeling the effects of pulsed versus chronic sand inputs on salmonid spawning habitat in a low-gradient gravel-bed river. Earth Surface Processes and Landforms. doi: 10.1002/esp.3491

Mayer, P.; Dwire, K.A.; Okay, J.A.; Vidon, P.G. 2014. Featured Collection Introduction: Riparian Ecosystems and Buffers II. Journal of the American Water Resources Association. 50(3): 529-532. DOI: 10.1111/jawr.12212.

McDowell, N., H. Barnard, B.J. Bond, T. Hinckley, R.M. Hubbard, H. Ishii, B. Köstner, F. Magnani, J.D. Marshall, F.C. Meinzer, N. Phillips, M.G. Ryan, and D. Whitehead. 2002. The relationship between tree height and leaf area: sapwood area ratio. Oecologia 132:12-20.

McIntosh, B.A., J.R. Sedell, R.F. Thurow, S.E. Clarke, and G.L. Chandler. 2000. Historical changes in pool habitats in the Columbia River basin. Ecological Applications 10(5):1478-1496. 

McKean, Jim; Tonina, Daniele. 2013. Bed stability in unconfined gravel bed mountain streams: With implications for salmon spawning viability in future climates. Journal of Geophysical Research: Earth Surface. 118: 1227-1240.

McKean, Jim; Isaak, Dan; Wright, Wayne. 2009. Chapter 2: Stream and riparian habitat analysis and monitoring with a high-resolution terrestrial-aquatic LiDAR. In: Bayer, Jennifer M.; Schei, Jacquelyn L., eds. PNAMP Special Publication: Remote Sensing Applications for Aquatic Resource Monitoring. Cook, WA: Pacific Northwest Aquatic Monitoring Partnership. p. 7-16.

McKean, J.; Tonina, D., Bohn, C.; Wright, C.W.; 2014. Effects of bathymetric lidar errors on a multi-dimensional hydraulic model of flow and bed shear stress in a small clear-water stream. Journal of Geophysical Research - Earth Surface, 119 (3), 644-664, doi:10.1002/2013JF002897.

McKean, Jim; Nagel, Dave; Tonina, Daniele; Bailey, Philip; Wright, Charles Wayne; Bohn, Carolyn; Nayegandhi, Amar. 2009. Remote sensing of channels and riparian zones with a narrow-beam aquatic-terrestrial LIDAR. Remote Sensing. 1: 1065-1096.

McKean, J.; J. Roering. 2004. Objective landslide detection and surface morphology mapping using high-resolution airborne laser altimetry. Geomorphology, 57, 331-351.

McKean, J.A., D.J. Isaak, and C.W. Wright.  2008. Geomorphic controls on salmon nesting patterns described by a new, narrow-beam terrestrial-aquatic lidar. Frontiers in Ecology and the Environment. 6:125-130.

McKean, Jim; Isaak, Dan; Wright, Wayne  2009. Improving stream studies with a small-footprint green lidar.   Eos. 90(39): 341-342.

Meyer, Kristen E.; Dwire, Kathleen A.; Champ, Patricia A.; Ryan, Sandra E.; Riegel, Gregg M.; Burton, Timothy A.  2012. Burning questions for managers: Fuels management practices in riparian areas. Fire Management Today. 72(2): 16-23.

Millar, David J.; Cooper, David J.; Dwire, Kathleen A.; Hubbard, Robert M.; von Fischer, Joseph. 2016. Mountain peatlands range from CO2 sinks at high elevations to sources at low elevations: Implications for a changing climate. Ecosystems. doi: 10.1007/s10021-016-0034-7.

Miller, Mary Ellen; Elliot, William J. 2016. A rapid response database in support of post-fire hydrological modeling. StreamNotes, February 2016. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, National Stream and Aquatic Ecology Center. p. 1-7.

Miller, M. E.; Elliot, W. J.; Billmire, M.; Robichaud, P. R.; Endsley, K. A. 2016. Rapid-response tools and datasets for post-fire remediation: Linking remote sensing and process-based hydrological models. International Journal of Wildland Fire. 25: 1061-1073.

Milledge, D. G., D. Bellugi, J. A. McKean, A. L. Densmore, and W. E. Dietrich (2014), A multidimensional stability model for predicting shallow landslide size and shape across landscapes, J. Geophys. Res. Earth Surf., 119, doi:10.1002/2014JF003135.

Montesi, J., K. Elder, R. A. Schmidt, and R. Davis, 2004, Sublimation of intercepted snow within a subalpine canopy at two elevations, J. Hydromet., 5, 763-773.

Montgomery, D.R., Schmidt, K.M., Dietrich, W.E., McKean, J. Accepted With Revisions. Instrumental record of debris flow initiation during natural rainfall. American Geophysical Union, Journal of Geophysical Research.

Mountjoy, J.J., McKean, J., Barnes, P.M., Pettinga, J.R., 2009. Terrestrial-style slow-moving earthflow kinematics in a submarine landslide complex. Marine Geology, v. 267, 114-127.

Musselman, Robert C.; Lefohn, Allen S.; Massman, William J.; Heath, Robert L. 2006. A critical review and analysis of the use of exposure- and flux-based ozone indices for predicting vegetation effects. Atmospheric Environment. 40: 1869-1888.

Musselman, R.C.; Korfmacher, J.L. 2007. Air quality and snow chemistry at a snowmobile staging area in a Rocky Mountain subalpine forest, Snowy Range, Wyoming. Environmental Monitoring and Assessment. 131:321-334.

Musselman, R. C.; Massman, W. J.; Frank, J. M.; Korfmacher, J. L. 2005. The temporal dynamics of carbon dioxide under snow in a high elevation Rocky Mountain subalpine forest and meadow. Arctic, Antarctic, and Alpine Research. 37(4): 527-538.

Musselman, R.C.; W.L. Slauson. 2004. Water chemistry of high elevation Colorado lakes.  Biogeochemistry 71: 387-414.

Musselman, Robert C.; Shepperd, Wayne D.; Smith, Frederick W.; Asherin, Lance A.; Gee, Brian W. 2012. Response of transplanted aspen to irrigation and weeding on a Colorado reclaimed surface coal mine. Res. Pap. RMRS-RP-101. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 20 p.

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Nagel, D., 2005. Estimating Valley Confinement with DEM Data to Support Cutthroat Trout Research. 2005 Resource Management Tools and Geospatial Conference, Phoenix, Arizona, April 18 – 22.

Nagel, D., 2007. Comparison of Two Models for Identifying Low Gradient, Unconfined Streams and Valley Bottom Extent, In Support of Stream Temperature Modeling Associated with Fire Effects. FS/BLM Geospatial 2007, Portland, OR.

Nagel, D., C. Luce, and B. Gutiérrez Teira, 2004.  Use of Thematic Mapper Satellite Imagery, Hemispherical Canopy Photography, and Digital Stream Lines to Predict Stream Shading in the Boise River Basin.  The 19th Annual Northwest GIS Users Conference, Sun Valley, Idaho, September 26-29, 2004.

Nagel, D., C. Luce, J. King, B. Rieman and J. Dunham, 2003.  Debris Flow Mapping Through Time, Data Management using ArcGIS and Implications for Fish Research. FS Geospatial ’03, Colorado Springs, CO.

Nagel, D., C. Luce., D. Isaak, and B. Rieman, 2007.  Toward Stream Temperature Prediction at the Drainage Basin Scale, A GIS and Remote Sensing Approach. The 22nd Annual Northwest GIS Users’ Conference and Training

Nagel, D., J. Buffington, and D. Isaak, 2006.  Comparison of Methods for Estimating Stream Channel Gradient Using GIS.  The 21st Annual Northwest GIS Users’ Conference and Training, Spokane, WA, September 13-15.

Neary, D.G. 2006. A global view of forest fires and desertification: Environmental and socio-economic consequences. Conferência Internacional sobre Incêndios e Desertificaçã, Lisbon, Portugal, 30 October 2006, Comissão Nacional de Coordenação do PANCD (Programa de Acção Nacional de Combate à Desertificação), General Directorat of Forestry Resources, Portugal. Programa de Acção Nacional de Combate à Desertificação Proceedings. 4 p

Neary, Daniel G. 2015. Best practices guidelines for managing water in bioenergy feedstock production. Task 43. Report 2015:TR02. IEA Bioenergy. 125 p.

Neary, Daniel G. 2016. Long-term forest paired catchment studies: What do they tell us that landscape-level monitoring does not? Forests. 7: 164.

Neary, Daniel G. 2017. Forest management and water in the United States [Chapter 13]. In: Garcia-Chevesich, Pablo A.; Neary, Daniel G.; Scott, David F.; Benyon, Teresa Reyna, eds. Forest management and the impact on water resources: A review of 13 countries. IHP - VIII / Technical Document No. 37. Paris, France: United Nations Educational, Scientific, and Cultural Organization (UNESCO), International Hydrological Program. p. 181-203.

Neary, Daniel G.; Baillie, Brenda R. 2016. Cumulative effects analysis of the water quality risk of herbicides used for site preparation in the Central North Island, New Zealand. Water. 8: 573.

Neary, D.G.; Gottfried, G.J. Beyers, J.L.; Ffolliott, P.F. 2006. Floods and sediment yields from recent wildfires in Arizona. Proceedings of the 8th Federal Interagency Sediment Conference, Las Vegas, NV April 3-6, 2006. CD-ROM

Neary, D.G.; Gottfried, G.J.; Ffolliott, P.F. 2006. Effects of prescribed fire on oak savannas in the American Southwest. In: Viegas, D.X. (ed.) Proceedings of the 5th International Conference on Forest Fire Research. CD ROM, Elsevier, Amsterdam, The Netherlands. 13 p.

Neary, D.G.; Overby, S.T. 2006. Wildfire and post-fire erosion impacts on forest ecosystem carbon and nitrogen: an analysis. In: Viegas, D.X. (ed.) Proceedings of the 5th International Conference on Forest Fire Research. CD ROM, Elsevier, Amsterdam, The Netherlands. 12 p.

Neary, Daniel G.; Ryan, Kevin C.; DeBano, Leonard F., eds. 2005. (revised 2008). Wildland fire in ecosystems: effects of fire on soils and water. Gen. Tech. Rep. RMRS-GTR-42-vol.4. Ogden, UT: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 250 p.

Neary, Daniel G.; Medina, Alvin L.; Rinne, John N.  2012. Synthesis of Upper Verde River research and monitoring 1993-2008. Gen. Tech. Rep. RMRS-GTR-291. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 296 p.

Related Documents: Verde River Synthesis GTR Memo | Upper Verde River: Review of Stream-Riparian Monitoring Efforts Conducted by the U.S. Forest Service Rocky Mountain Research Station

Nelson, Monique LaPerriere; Rhoades, Charles C.; Dwire, Kathleen A. 2011. Influence of bedrock geology on water chemistry of slope wetlands and headwater streams in the southern Rocky Mountains. Wetlands. 31: 251-261.

Neville, H. M.; Isaak, D. J.; Dunham, J. B.; Thurow, R. F.; Rieman, B. E. 2006. Fine-scale natal homing and localized movement as shaped by sex and spawning habitat in Chinook salmon: Insights from spatial autocorrelation analysis of individual genotypes. Molecular Ecology. 15: 4589-4602.

Neville, H., Isaak, D., Thurow, R., Dunham, J., Rieman, B.  2006.  Microsatellite variation reveals weak genetic structure and retention of genetic variability in threatened Chinook salmon (Onchorynchus tshawytscha) within a Snake River watershed.  Conservation Genetics.  DOI 10.1007/s10592-006-9155-4. 

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Overton, C. Kerry; Wollrab, Sherry P.; Roberts, Bruce C.; Radko, Michael A. 1997. R1/R4 (Northern/Intermountain Regions) fish and fish habitat standard inventory procedures handbook. Gen. Tech. Rep. INT-GTR-346. Ogden, UT: U.S. Department of Agriculture, Forest Service, Intermountain Research Station. 73 p.

Overton, C. Kerry; Chandler, Gwynne L.; Pisano, Janice A. 1994. Northern/Intermountain Regions' fish habitat inventory: grazed, rested, and ungrazed reference stream reaches, Silver King Creek, California. Gen. Tech. Rep. INT-GTR-311. Ogden, UT: U.S. Department of Agriculture, Forest Service, Intermountain Research Station. 27 p.

Overton, C. Kerry; McIntyre, John D.; Armstrong, Robyn; Whitwell, Shari L.; Duncan, Kelly A. 1995. User's guide to fish habitat: descriptions that represent natural conditions in the Salmon River Basin, Idaho. Gen. Tech. Rep. INT-GTR-322. Ogden, UT: U.S. Department of Agriculture, Forest Service, Intermountain Research Station. 142 p.

Overton, C. Kerry; Radko, Michael A.; Nelson, Rodger L. 1993. Fish habitat conditions: using the Northern/Intermountain Regions'' inventory procedures for detecting differences on two differently managed watersheds. Gen. Tech. Rep. INT-300. Ogden, UT: U.S. Department of Agriculture, Forest Service, Intermountain Research Station. 14 p.

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Pelz, K.A.; Rhoades, C.C., Hubbard, R.M.; Battaglia, M.A.; Smith, F.W. 2015.  Species composition influences management outcomes following mountain pine beetle in lodgepole pine-dominated forests. Forest Ecology and Management. 336: 11-20.

Perron, T., Dietrich, W., Howard, A., McKean, J., Pettinga, J. 2003. Ice-driven creep on Martian debris slopes. Geophysical Research Letters, 30(14), 1747, doi:10.1029/2003GL017603.

Peterson, Douglas P.; Rieman, Bruce E.; Dunham, Jason B.; Fausch, Kurt D.; Young, Michael K. 2007. Analyzing tradeoffs between the threat of invasion by brook trout and effects of intentional isolation for native westslope cutthroat trout. In: Carline, R.F.; LoSapio, C., eds. 2007. Sustaining wild trout in a changing world; proceedings of Wild Trout IX symposium; 2007 October 9-12; West Yellowstone, Montana: 51-57.

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Peterson, Erin E.; Ver Hoef, Jay M.; Isaak, Dan J.; Falke, Jeffrey A.; Fortin, Marie-Josee; Jordan, Chris E.; McNyset, Kristina; Monestiez, Pascal; Ruesch, Aaron S.; Sengupta, Aritra; Som, Nicholas; Steel, E. Ashley; Theobald, David M.; Torgersen, Christian E.; Wenger, Seth J. 2013. Modelling dendritic ecological networks in space: An integrated network perspective. Ecology Letters. doi: 10.1111/efe.12084.

Petrie, M. D.; Bradford, J. B.; Hubbard, R. M.; Lauenroth, W. K.; Andrews, C. M.; Schlaepfer, D. R. 2017. Climate change may restrict dryland forest regeneration in the 21st century. Ecology. 98(6): 1548-1559.

Petrie, M. D.; Wildeman, A. M.; Bradford, J. B.; Hubbard, R .M.; Lauenroth, W. K. 2016. A review of precipitation and temperature control on seedling emergence and establishment for ponderosa and lodgepole pine forest regeneration. Forest Ecology and Management. 361: 328-338.

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Rader, Russel B.; Belish, Timberley; Young, Michael K.; Rothlisberger, John 2007. The scotopic visual sensitivity of four species of trout: A comparative study. Western North American Naturalist. 67(4): 524-537.

Reese, H., Lillesand, T., Nagel, D., Stewart, J., Goldmann, R., Simmons, T., Chipman, J., and Tessar, P., 2002. Statewide Land Cover Derived from Multi-seasonal Landsat TM Data: A Retrospective of the WISCLAND Project. Remote Sensing of Environment.  82(2-3):224-237.

Reeves, G.H., P.A. Bisson, B.E. Rieman, L.E. Benda. 2006. Postfire Logging in Riparian Areas. Conservation Biology. 20(4):994-1004.

Rhoades, C.C. 2007. Influence of American chestnut (Castanea dentata) on chemistry and nitrogen availability of fine and coarse-texture soils. Pedobiologia. 50:553-562.

Rhoades, C.C. 1995.  Seasonal pattern of nitrogen mineralization and soil moisture beneath Faidherbia albida (syn. Acacia albida) in central Malawi. Agroforestry Systems 29:133-145.

Rhoades, C.C. 1997. Single-tree influence on soil properties in agroforestry systems: Lessons from natural and savanna ecosystems.  Agroforestry Systems 35:71-94.

Rhoades, C.C., T.G. Barnes, and B.E. Washburn. 2002.  Prescribed fire and herbicide effects on soil processes during barrens restoration. Restoration Ecology 10:1-9.

Rhoades, C. C.; Battaglia, M. A.; Rocca, M. E.; Ryan, M. G. 2012. Short- and medium-term effects of fuel reduction mulch treatments on soil nitrogen availability in Colorado conifer forests. Forest Ecology and Management. 276: 231-238.

Rhoades, C. and D. Binkley. 1996. Factors influencing soil pH changes beneath Eucalyptus and Albizia plantations in Hawaii. Forest Ecology and Management. 80:47-56.

Rhoades, C. and D. Binkley. 1992. Spatial extent of altered soil properties associated with mixed species forest stands of N2-fixing red alder and Douglas-fir. Canadian Journal of Forest Research 22:1434-1437.

Rhoades, Charles; Binkley, Dan; Oskarsson, Hlynur; Stottlemyer, Robert. 2008. Soil nitrogen accretion along a floodplain terrace chronosequence in northwest Alaska: Influence of the nitrogen-fixing shrub Shepherdia Canadensis. Ecoscience. 15(2): 223-230.

Rhoades, C.C., S.L. Brosi, A.J. Dattilo, and P. Vincelli. 2003. Soil compaction and moisture controls on incidence of Phytophthora root rot on American Chestnut seedlings. Forest Ecology and Management 184:47-54.

Rhoades, C.C. and D.C. Coleman. 1999. Nitrogen mineralization and nitrification following land conversion in montane Ecuador. Soil Biology and Biochemistry 31:1347-1354.

Rhoades, C.; Elder, K.; Greene, E. 2010. The influence of an extensive dust event on snow chemistry in the southern Rocky Mountains. Arctic, Antarctic, and Alpine Research. 42(1): 98-105.

Rhoades, C.C., G.E. Eckert, and D.C. Coleman. 1998. Effect of pasture trees on soil nitrogen availability and soil organic matter cycling: Implications for montane forest restoration. Restoration Ecology 6:262-270.

Rhoades, C.C., G.E. Eckert, and D.C. Coleman. 2000. Soil carbon changes among forest, agriculture and secondary vegetation in lower montane Ecuador. Ecological Applications 10:497-505.

Rhoades, Charles C.; Entwistle, Deborah; Butler, Dana. 2011. The influence of wildfire extent and severity on streamwater chemistry, sediment and temperature following the Hayman Fire, Colorado. International Journal of Wildfire Science. 20: 430-442.

Rhoades, Charles C., and Fornwalt, Paula J. 2015. Pile burning creates a fifty-year legacy of openings in regenerating lodgepole pine forests in Colorado. Forest Ecology and Management. 336: 203-209.

Rhoades, Charles C.; Fornwalt, Paula J.; Paschke, Mark W.; Shanklin, Amber; Jonas, Jayne L. 2015. Recovery of small pile burn scars in conifer forests of the Colorado Front Range. Forest Ecology and Management. 347: 180-187.

Rhoades, Chuck; Loftis, David; Lewis, Jeffrey; Clark, Stacy. 2009. The influence of silvicultural treatments and site conditions on American chestnut (Castanea dentata) seedling establishment in eastern Kentucky, USA. Forest Ecology and Management. 258: 1211-1218.

Rhoades, Charles C.; Meier, A. J.; Rebertus, A. J. 2004. Soil properties in fire-consumed log burnout openings in a Missouri oak savanna. Forest ecology and management. 192(2/3): 277-284.

Rhoades, Charles C.; McCutchan, James H., Jr.; Cooper, Leigh A.; Clow, David; Detmer, Thomas M.; Briggs, Jennifer S.; Stednick, John D.; Veblen, Thomas T.; Ertz, Rachel M.; Likens, Gene E.; Lewis, William M., Jr. 2013. Biogeochemistry of beetle-killed forests: Explaining a weak nitrate response. PNAS. 110(5): 1756-1760.

Rhoades, C. C.; Miller, S. P.; Skinner, D. L. 2005. Forest vegetation and soil patterns across glade-forest ecotones in the Knobs region of northeastern Kentucky, USA. American Midland Naturalist. 154(1): 1-10.

Rhoades, Charles C.; Minatre, Kerri L.; Pierson, Derek N.; Fegel, Timothy S.; Cotrufo, M. Francesca; Kelly, Eugene F. 2017. Examining the potential of forest residue-based amendments for post-wildfire rehabilitation in Colorado, USA. Scientifica: Article ID 4758316.

Rhoades, C.C., T.M. Nissen, and J.S. Kettler. 1998. Soil nitrogen dynamics in alley cropping and no-till systems on ultisols of the Georgia Piedmont, USA.  Agroforestry Systems 39:31-44.

Rhoades, C.C., H. Oskarsson, D. Binkley, and R. Stottlemyer. 2001.  Alder (Alnus crispa) effects on soils vary with ecosystem type along the Agashashok River, northwest Alaska. Ecoscience. 8(1):89-95.

Rhoades, C.C. and A.C. Park. 2001. Pre-blight abundance of American chestnut in Kentucky.  Journal of the American Chestnut Foundation 15(1):36-44.

Rhoades, Charles C.; Pelz, Kristen A.; Fornwalt, Paula J.; Wolk, Brett H.; Cheng, Antony S. 2018. Overlapping bark beetle outbreaks, salvage logging and wildfire restructure a lodgepole pine ecosystem. Forests. 9(3): 101.

Rhoades, C., R.L. Sanford Jr., and D.B. Clark. 1994.  Gender-dependent influences on soil phosphorus by the dioecious lowland tropical tree Simarouba amara. Biotropica 26:362-368.

Rhoades, C.C. and M.M. Shea. 2003.  Forest type influences response of vegetation and soil chemistry to edge clearing in dry glades (Kentucky). Ecological Restoration 21:42-43.

Rieman, Bruce E.; Hessburg, Paul F.; Luce, Charles; Dare, Matthew R.  2010.  Wildfire and management of forests and native fishes: Conflict or opportunity for convergent solutions?. BioScience. 60(6): 460-468.

Rieman, Bruce E.; Isaak, Daniel J. 2010. Climate change, aquatic ecosystems, and fishes in the Rocky Mountain West: implications and alternatives for management. Gen. Tech. Rep. RMRS-GTR-250. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 46 p.

Rieman, Bruce E.; Isaak, Daniel; Adams, Susan; Horan, Dona; Nagel, David; Luce, Charles; Myers, Deborah 2007. Anticipated climate warming effects on bull trout habitats and populations across the interior Columbia River basin. Transactions of the American Fisheries Society. 136: 1552-1565.

Rieman, B.E. and G.L. Chandler. 1999. Empirical evaluation of temperature effects on bull trout distribution in the northwest. Final Report to: U.S. EPA, Contract 12957242-01-0, Boise, Idaho.

Rieman, B.E., D.C. Lee, G. Chandler, and D. Myers. 1997. Does wildfire threaten extinction for salmonids: responses of redband trout and bull trout following recent large fires on the Boise National Forest. Pages 47-57 In, J. Greenlee (editor). Proceedings of the Conference on Wildfire and Threatened and Endangered Species and Habitats, November 13-15, 1995, Coeur d'Alene Idaho. International Association of Wildland Fire, Fairfield, Washington.

Rieman, Bruce E.; Dunham, Jason B.; Clayton, James L. 2006. Emerging concepts for management of river ecosystems and challenges to applied integration of physical and biological sciences in the Pacific Northwest, USA. International journal of river basin management. 4(2): 85–97

Rieman, Bruce E.; Peterson, James T.; Myers, Deborah L. 2006. Have brook trout (Salvelinus fontinalis) displaced bull trout (Salvelinus confluentus) along longitudinal gradients in central Idaho streams?. Canadian Journal of Fisheries and Aquatic Sciences. 63(1): 63-78.

Rieske, L.K., C.C. Rhoades, and S.P. Miller. 2003. Foliar chemistry and gypsy moth herbivory on seedlings of pure and hybrid Chestnut, Castanea spp. (Fam: Fagaceae), and a Disease-Resistant Hybrid. Environmental Entomology 32:359-365.

Rinne J. N and G. Jacoby.  2005. Aquatic Biota, Fishes. Invertebrates.   Pp 135-143.  In:  Neary D. G., Ryan, K.;  Landsberg, J.; Debano, L. F. (technical editors). Wildland Fire in Ecosystems:  Effects of on soil and water.  USDA Forest Service General Technical Report RM-42, Fort Collins CO.

Rinne, J. N. and B. Calamusso.   2006.  Southwestern trouts.  Conservation with reference to physiography, hydrology, distribution and threats. American Fisheries Society Symposium 53:  63- 77.  Bethesda, MD.

Rinne, J. N. and D. Miller. 2006. Hydrology, geomorphology and management: Implications for sustainability of southwestern native fishes. Reviews in Fisheries Biology.

Rinne, J. N.  2005.  Changes in Fish assemblages in the Verde River, Arizona, pp 115-126. In, Rinne, J. N.; Hughes, R. M.; Calamusso, B. (editors)  . Historical changes in fish assemblages of large rivers in the Americas.  American Fisheries Society Symposium 45.   Bethesda, MD   611 pp.

Rinne, J. N., R. M. Hughes, and B. Calamusso. (editors).  2005.  Historical changes in fish assemblages of large rivers in the Americas. American Fisheries Society Symposium 45.     American Fisheries Society,  Bethesda, MD.  611 pp.

Robichaud, P. R., W. J. Elliot, F. B. Pierson, D. E. Hall, C. A. Moffet and L. E. Ashmun.  2007.  Erosion Risk Management Tool (ERMiT) user manual (version 2006.01.18). Gen. Tech. Rep. RMRS-GTR-188.  Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station.  24 p.

Robichaud, P.R.; J.L. Beyers; D.G. Neary. 2005. Chapter 10: Watershed rehabilitation. In: Neary, D.G.; K.C. Ryan; L.F. DeBano, eds. Wildland fire in ecosystems: effects of fire on soils and water. Gen Tech Rep RMRS-GTR-42-vol.4. Ogden, UT: USDA Forest Service, Rocky Mountain Research Station. 179-197.

Robichaud, P.R.; Lewis, S.A.; Ashmun, L.E. 2008. New procedure for sampling infiltration to assess post-fire soil water repellency. Res. Note. RMRS-RN-33. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 14 p.

Robichaud, Peter R.; Lewis, Sarah A.; Laes, Denise Y. M.; Hudak, Andrew T.; Kokaly, Raymond F.; Zamudio, Joseph A. 2007. Postfire soil burn severity mapping with hyperspectral image unmixing. Remote Sensing of the Environment. 108: 467-480.

Robichaud PR, Massman WJ, Lesiecki ML. 2018. High soil temperature data archive from prescribed fires and wildfires database. Ft. Collins, CO: US Department of Agriculture, Forest Service, Rocky Mountain Research Station.

Robichaud, Peter R.; Pierson, Frederick B.; Brown, Robert E.; Wagenbrenner, Joseph W. 2008. Measuring effectiveness of three postfire hillslope erosion barrier treatments, western Montana, USA. Hydrological Processes. 22: 159-170.

Robichaud, P.R.; T.R. Lillybridge; J.W. Wagenbrenner. 2006. Effects of postfire seeding and fertilization on hillslope erosion in north-central Washington, USA. Catena 67: 56-67.

Robichaud, Peter R.; Elliot, William J. 2006. Protection from erosion following wildfire. Unpublished paper written for presentation at the 2006 ASABE Annual International Meeting, Portland Convention Center, Portland, OR, July 9-12, 2006. ASABE Paper No. 068009. St. Joseph, MI: American Society of Agricultural and Biological Engineers. 7 p

Robichaud, P. R.; Wagenbrenner, J. W.; Brown, R. E.; Wohlgemuth, P. M.; Beyers, J. L. 2008. Evaluating the effectiveness of contour-felled log erosion barriers as a post-fire runoff and erosion mitigation treatment in the western United States. International Journal of Wildland Fire. 17: 255-273.

Robichaud, Peter R.; Ashmun, Louise E.; Foltz, Randy B.; Showers, Charles G.; Groenier, J. Scott; Kesler, Jennifer; DeLeo, Claire; Moore, Mary 2013. Production and aerial application of wood shreds as a post-fire hillslope erosion mitigation treatment. Gen. Tech. Rep. RMRS-GTR-307. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 31 p.

Robichaud, Peter R.; Lewis, Sarah A.; Wagenbrenner, Joseph W.; Ashmun, Louise E.; Brown, Robert E.  2013.  Post-fire mulching for runoff and erosion mitigation; Part I: Effectiveness at reducing hillslope erosion rates. Catena. 105: 75-92.

Robichaud, Peter R.; Wagenbrenner, Joseph W.; Lewis, Sarah A.; Ashmun, Louise E.; Brown, Robert E.; Wohlgemuth, Peter M. 2013. Post-fire mulching for runoff and erosion mitigation; Part II: Effectiveness in reducing runoff and sediment yields from small catchments. Catena. 105: 93-111.

Roering, J.J.; Almond, P.; Tonkin, P.; McKean, J. 2004. Constraining climatic controls on hillslope dynamics using a coupled model for the transport of soil and tracers: Application to loess-mantled hillslopes, Charwell River, South Island, New Zealand. Journal of Geophysical Research-Earth Surface, v. 109, F01010, doi:10.1029/2003JF000034.

Roering, J., Almond, P., Tonkin, P., McKean, J., 2002. Soil transport driven by biological processes over millennial time scales. Geology, 30(12), 1115-1118.

Roper, Brett B.; Buffington, John M.; Bennett, Stephen; Lanigan, Steven H.; Archer, Eric; Downie, Scott T.; Faustini, John; Hillman, Tracy W.; Hubler, Shannon; Jones, Kim; Jordan, Chris; Kaufmann, Philip R.; Merritt, Glenn; Moyer, Chris; Pleus, Allen. 2010. A comparison of the performance and compatibility of protocols used by seven monitoring groups to measure stream habitat in the Pacific Northwest. North American Journal of Fisheries Management 30: 565-587.

Rosenberger, A. E., J. B. Dunham, J. M. Buffington, and M. S. Wipfli. 2011. Persistent effects of wildfire and debris flows on the invertebrate prey base of rainbow trout in Idaho streams. Northwest Science 85(1):55-63.

Rothlisberger, John D.; Scalley, Tamara Heartsill; Thurow, Russell F. 2017. The role of wild and scenic rivers in the conservation of aquatic biodiversity. International Journal of Wilderness. 23(2): 49-63, 72.

Ruffing, C.M.; Daniels, M.D.; Dwire, K.A. 2015. Disturbance legacies of historic tie-drives persistently alter geomorphology and large wood characteristics in headwater streams, southeast Wyoming. Geomorphology. 231: 1-14. doi:10.1016/j.geomorph.2014.10.029

Ryan, Sandra E.; Dixon, Mark K. 2007. Spatial and temporal variability in stream sediment loads using examples from the Gros Ventre Range, Wyoming, USA. In: Habersack, H.; Piegay, H.; Rinaldi, M., editors. Gravel bed rivers VI: From process understanding to river restoration. Developments in Earth Surface Processes. 11: 387-407.

Ryan, Sandra E.; Emmett, William W. 2002. The nature of flow and sediment movement in Little Granite Creek near Bondurant, Wyoming. Gen. Tech. Rep. RMRS-GTR-90. Ogden, UT: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 48 p.

Ryan, S.E.; K. Bunte; and J.P. Potyondy. 2005.  Breakout Session 2:  Bedload Transport Measurement, Data Uncertainty, and New Technologies.  Proceedings of the Federal Interagency Sediment Monitoring Instrument and Analysis Research Workshop, September 9-11, 2003, Flagstaff, AZ.  USGS Circular 1276.  pp. 16-28.

Ryan, S.E.; L.S. Porth; and C.A. Troendle. 2005.  Coarse sediment transport in mountain streams in Colorado and Wyoming, USA.  Earth Surface Processes and Landforms 30:269-288.

Ryan, Sandra E.; Porth, Laurie S.; Troendle, C. A. 2002. Defining phases of bedload transport using piecewise regression. Earth Surface Processes and Landforms. 27: 971-990.

Ryan, S.E.; M.K. Dixon; and K.A. Dwire.  2006. The use of turbidity sensors for monitoring sediment loads following wildfire.  Proceedings of the 8th Interagency Sedimentation and 3rd Interagency Hydrologic Modeling Conference, Reno, NV, April 2-6, 2006. Available on CD.

Ryan, Sandra E.; Dwire, Kathleen A.; Dixon, Mark K.  2011. Impacts of wildfire on runoff and sediment loads at Little Granite Creek, western Wyoming. Geomorphology. 129: 113-130.

Ryan, Sandra; Dwire, Kathleen  2012.  Wildfire impacts on stream sedimentation: re-visiting the Boulder Creek Burn in Little Granite Creek, Wyoming, USA.   In: Stone, Mike; Collins, Adrian; Thoms, Martin, eds. Wildfire and Water Quality: Processes, Impacts and Challenges (Proceedings of a conference held in Banff, Canada, 11­14 June 2012). IAHS Publ. 354. International Association of Hydrological Sciences. p. 75-80.

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Sanchez-Murillo, Ricardo; Brooks, Erin S.; Elliot, William J.; Boll, Jan. 2015. Isotope hydrology and baseflow geochemistry in natural and human-altered watersheds in the Inland Pacific Northwest, USA. Isotopes in Environmental and Health Studies. doi: 10.1080/10256016.2015.1008468.

Schwartz, Michael K.; Penaluna, Brooke E.; Wilcox, Taylor M. 2017. eDNA - Not just for fisheries biologists anymore. The Wildlife Professional. November/December 2017. Online: http://wildlife.org/not-just-for-fisheries-biologists-anymore/.

Schlesinger, William H.; Dietze, Michael C.; Jackson, Robert B.; Phillips, Richard P.; Rhoades, Charles C.; Rustad, Lindsey E.; Vose, James M. 2015. Forest biogeochemistry in response to drought. Global Change Biology. doi: 10.1111/gcb.13105.

Seo, Kyung Won; Son, Yowhan; Rhoades, Charles C.; Noh, Nam Jin; Koo, Jin Woo; Kim, Jeong-Gyu 2008. Seedling growth and heavy metal accumulation of candidate woody species for revegetating Korean mine spoils. Restoration Ecology. 16(4): 702-712.

Shively, Dan; Rothlisberger, John D.; Gillespie, Nathaniel; Dombeck, Mike; Moore, Virgil; Roghair, Craig; Demario, Devin; McCormick, Frank; Weldon, Leslie. 2018. Historical perspectives and a new U.S. Forest Service strategy for fish and aquatic stewardship. Fisheries. 43(9): 386-395.

Spigel, K.M.; Robichaud, P.R. 2007. First-year post-fire erosion rates in Bitterroot National Forest, Montana. Hydrological Processes 21(8): 998-1005.

Stone, Katharine R.; Pilliod, David S.; Dwire, Kathleen A.; Rhoades, Charles C.; Wollrab, Sherry P.; Young, Michael K.  2010.  Fuel reduction management practices in riparian areas of the western USA. Environmental Management. 46: 91-100.

Stottlemyer, R., C. Rhoades, and H. Steltzer. 2001. Soil temperature, moisture and carbon and nitrogen mineralization at a taiga-tundra ecotone, Noatak National Preserve, Northwestern Alaska.  U.S. Geological Survey Professional Paper 1678. 127-137.

Switalski, T. A.; Bissonette, J. A.; Deluca, T. H.; Luce, C. H.; Madej, M. A. 2004. Benefits and impacts of road removal. Frontiers in ecology and the environment. 2(1): 21-28.

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Thurow, Russell F. 2015. Accountability across resources [Salmon and Wilderness: Sharing the responsibility, sharing the benefits]. Wilderness Advisory Group News, WAG Tales. Winter 2015: 6, 11.

Thurow, Russell F. 2016. Life histories of potamodromous fishes [Chapter 4]. In: Morais, Pedro; Daverat, Franchise, eds. An introduction to fish migration. Boca Raton, FL: CRC Press. p. 29-54.

Thurow, Russell F.; Peterson, James T.; Guzevich, John W. 2006. Utility and validation of day and night snorkel counts for estimating bull trout abundance in first-to-third order streams. North American Journal of Fisheries Management. 26: 117-132.

Tonina, Daniele; Buffington, John M. 2009. A three-dimensional model for analyzing the effects of salmon redds on hyporheic exchange and egg pocket habitat. Canadian Journal of Fisheries and Aquatic Sciences. 66(12): 2157-2173.

Tonina, Daniele; Buffington, John M. 2011. Effects of stream discharge, alluvial depth and bar amplitude on hyporheic flow in pool-riffle channels. Water Resources Research. 47: W08508. doi:10.1029/2010WR009140.

Tonina, Daniele; Buffington, John M. 2007. Hyporheic exchange in gravel bed rivers with pool-riffle morphology: Laboratory experiments and three-dimensional modeling. Water Resources Research, 43: W01421, doi:10.1029/2005WR004328.

Tonina, D.; McKean, J. A.; Tang, C.; Goodwin, P. 2011. New tools for aquatic habitat modeling. In: Valentine, Eric M., ed. Balance and uncertainty - Water in a changing world: Proceedings of the 34th IAHR World Congress, 33rd Hydrology and Water Resources Symposium, and 10th Conference on Hydraulics in Water Engineering; 26 June-1 July 2011, Brisbane, Australia. Engineers Australia. p. 3137-3144.

Tonina, Daniele; Buffington, John M. 2009. Hyporheic exchange in mountain rivers I: Mechanics and environmental effects. Geography Compass. 3(3): 1063-1086.

Tonina, Daniele; McKean, James A. 2010. Climate change impact on salmonid spawning in low-gradient streams in central Idaho, USA. In: Tao, J.; Chen, Q.; Liong, S-Y, eds. Proceedings of 9th International Conference on Hydroinformatics 2010; 7-11 September 2010; Tianjin, China. Beijing: Chemistry Industry Press. p. 389-397.

Trammell, T. L. E.; Rhoades, C. C.; Bukaveckas, P. A. 2004. Effects of prescribed fire on nutrient pools and losses from glades occurring within oak-hickory forests of central Kentucky. Restoration Ecology. 12(4): 596-603.

Trujillo, Ernesto; Ramirez, Jorge A.; Elder, Kelly J. 2007. Topographic, meteorologic, and canopy controls on the scaling characteristics of the spatial distribution of snow depth fields. Water Resources Research. 43, W07409, doi:10.1029/2006WR005317.

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U.S. Fish and Wildlife Service (USFWS). 2008. Bull Trout Recovery: Monitoring and Evaluation Guidance. Report prepared for the U.S. Fish and Wildlife Service by the Bull Trout Recovery and Monitoring Technical Group (RMEG). Portland, Oregon. Version 1 - 74 pp.

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Villareal, T.A. and Magaña, H.A. 2001. A red tide monitoring program for Texas coastal waters. Final Report Texas Parks and Wildlife pp. 77.

Vorster, Anthony G.; Evangelista, Paul H.; Stohlgren, Thomas J.; Kumar, Sunil; Rhoades, Charles C.; Hubbard, Robert M.; Cheng, Antony S.; Elder, Kelly. 2017. Severity of a mountain pine beetle outbreak across a range of stand conditions in Fraser Experimental Forest, Colorado, United States. Forest Ecology and Management. 389: 116-126.

Vose, James M.; Clark, James S.; Luce, Charles H.; Patel-Weynard, Toral, eds. 2016. Effects of drought on forests and rangelands in the United States: A comprehensive science synthesis. Gen. Tech. Rep. WO-93b. Washington, DC: U.S. Department of Agriculture, Forest Service, Washington Office. 289 p.

Vose, James M.; Ford, Chelcy R.; Laseter, Stephanie; Dymond, Salli; Sun, Ge; Adams, Mary Beth; Sebestyen, Stephen; Campbell, John; Luce, Charlie; Amatya, Devendra; Elder, Kelly; Heartsill, Tamara. 2012. Can forest watershed management mitigate climate change effects on water resources. In: Webb, Ashley A.; Bonell, Mike; Bren, Leon; Lane, Patrick N. J.; et. al., eds. 2012. Revisiting Experimental Catchment Studies in Forest Hydrology, Proceedings of a Workshop held during the XXV IUGG General Assembly in Melbourne, June–July 2011. IAHS Publ. 353:Oxfordshire, UK. 12-25.

Vose, J., C. Miniat, C. Luce, H. Asbjornsen, P. Caldwell, J. Campbell, G. Gordon, D. Isaak, S. Loheide, and G. Sun 2016. Ecohydrological implications of drought for forests in the United States. Forest Ecology and Management doi:10.1016/j.foreco.2016.03.025.

Vose, James M.; Swank, Wayne T.; Adams, Mary Beth; Amatya, Devendra; Campbell, John; Johnson, Sherri; Swanson, Frederick J.; Kolka, Randy; Lugo, Ariel E.; Musselman, Robert; Rhoades, Charles. 2014. The role of experimental forests and ranges in the development of ecosystem science and biogeochemical cycling research. In: Hayes, D.C.; Stout, S.L.; Crawford, R.H.; Hoover, A.P., eds. USDA Forest Service experimental forests and ranges research for the long term. New York, NY: 387-403.

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Washburn, B.E., T.G. Barnes, C.C. Rhoades, and R. Remington. 2002. Using imazapic and prescribed fire to enhance native warm-season grassland in Kentucky, USA. Natural Areas Journal 22:20-27.

Wenger, Seth J.; Isaak, Daniel J.; Dunham, Jason B.; Fausch, Kurt D.; Luce, Charlie; Neville, Helen M.; Rieman, Bruce E.; Young, Michael K.; Nagel, David E.; Horan, Dona L.; Chandler, Gwynne L.  2011.  Role of climate and invasive species in structuring trout distributions in the interior Columbia River Basin, USA.   Canadian Journal of Fisheries and Aquatic Science. 68: 988-1008.

Wenger, Seth J.; Isaak, Daniel J.; Luce, Charlie; Neville, Helen M.; Fausch, Kurt D.; Dunham, Jason B.; Dauwalter, Daniel C.; Young, Michael K.; Elsner, Marketa M.; Rieman, Bruce E.; Hamlet, Alan F.; Williams, Jack E.  2011.  Flow regime, temperature, and biotic interactions drive differential declines of trout species under climate change. Proceedings of the National Academy of Science (PNAS). 108(34): 14175-14180.

Wenger, Seth J.; Luce, Charles H.; Hamlet, Alan F.; Isaak, Daniel J.; Neville, Helen M. 2010. Macroscale hydrologic modeling of ecologically relevant flow metrics. Water Resources Research. 46: W09513. doi:10.1029/2009WR008839.

Wenger, Seth J.; Som, Nicholas A.; Dauwalter, Daniel C.; Isaak, Daniel J.; Neville, Helen M.; Luce, Charles H.; Dunham, Jason B.; Young, Michael K.; Fausch, Kurt D.; Rieman, Bruce E. 2013. Probabilistic accounting of uncertainty in forecasts of species distributions under climate change. Global Change Biology. Accepted paper. doi: 10.1111/gcb.12294.

Whiteley, A.; Spruell, P.; Rieman, B.; Allendorf, F. 2006. Fine-scale genetic structure of bull trout at the southern limit of their distribution. Transactions of the American Fisheries Society 135: 1238-1253.

Wilcox, T.M., K. J. Carim, M. K. Young, K. S. McKelvey, T. W. Franklin, M. K. Schwartz. 2018. Comment: The Importance of Sound Methodology in Environmental DNA Sampling. North American Journal of Fisheries Management DOI: 10.1002/nafm.10055.

Wilcox TM, Carim KJ, McKelvey KS, Young MK, Schwartz MK. 2015a. The dual challenges of generality and specificity when developing environmental DNA markers for species and subspecies of Oncorhynchus. PLoS ONE, 10, e142008.

Wilcox TM, McKelvey KS, Young MK, Jane SF, Lowe WH, Whiteley AR, Schwartz MK. 2013. Robust detection of rare species using environmental DNA: the importance of primer specificity. PLoS ONE, 8, e59520.

Wilcox TM, Schwartz MK, McKelvey KS, Young MK, Lowe WH. 2014. A blocking primer increases specificity in environmental DNA detection of bull trout (Salvelinus confluentus). Conservation Genetics Resources, 6, 283–284.

Wilcox TM, McKelvey KS, Young MK, Lowe WH, Schwartz MK. 2015b. Environmental DNA particle size distribution from Brook Trout (Salvelinus fontinalis). Conservation Genetics Resources, 7, 639-641.

Wilcox TM, McKelvey KS, Young MK, Sepulveda AJ, Shepard BB, Jane SF, Whiteley AR, Lowe WH, Schwartz MK. 2016. Understanding environmental DNA detection probabilities: a case study using a stream-dwelling char Salvelinus fontinalis. Biological Conservation, 194, 209–216.

Wohl, Ellen; Bolton, Susan; Cadol, Daniel; Comiti, Francesco; Goode, Jaime R.; Mao, Luca 2012. A two end-member model of wood dynamics in headwater neotropical rivers. Journal of Hydrology. 462-463: 67-76.

Wohl, Ellen; Dwire, Kathleen; Sutfin, Nicholas; Polvi, Lina; Bazan, Roberto 2012. Mechanisms of carbon storage in mountainous headwater rivers. Nature Communications. 3: 1263.

Wilcox, T.M., Young, M.K., McKelvey, K.S., Isaak, D.J., Horan, D.L. and Schwartz, M.K., 2018. Fine-scale environmental DNA sampling reveals climate-mediated interactions between native and invasive trout species. Ecosphere. 9: e02500. 

Wilcox, T.M., Zarn, K.E., Piggott, M.P., Young, M.K., McKelvey, K.S. and Schwartz, M.K. 2018. Capture enrichment of aquatic environmental DNA: A first proof of concept. Molecular Ecology Resources 18:1392-1401. 

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Young, Michael K.; Mace, Ethan A.; Ziegler, Eric T.; Sutherland, Elaine K. 2006. Characterizing and contrasting instream and riparian coarse wood in western Montana basins. Forest Ecology and Management. 226: 26-40.

Young, M. K., G. T. Allison, and K. Foster.  2007.  Observations of boreal toads (Bufo boreas boreas) and Batrachochytrium dendrobatidis in south-central Wyoming and north-central Colorado.  Herpetological Review 38:  146-150.

Young, Michael K.; Guenther-Gloss, Paula M.; Ficke, Ashley D. 2005. Predicting cutthroat trout (Oncorhynchus clarkii) abundance in high-elevation streams: revisiting a model of translocation success. Canadian Journal of Fisheries and Aquatic Sciences, Volume 62, Number 10, 1 October 2005, pp. 2399-2408(10).

Young, Michael K.; Isaak, Daniel J.; Spaulding, Scott; Thomas, Cameron A.; Barndt, Scott A.; Groce, Matthew C.; Horan, Dona; Nagel, David E. 2018. Climate vulnerability of native cold-water salmonids in the Northern Rockies Region [Chapter 5]. In: Halofsky, Jessica E.; Peterson, David L.; Dante-Wood, S. Karen; Hoang, Linh; Ho, Joanne J.; Joyce, Linda A., eds. Climate change vulnerability and adaptation in the Northern Rocky Mountains [Part 1]. Gen. Tech. Rep. RMRS-GTR-374. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. p. 87-127.

Young MK, Isaak DJ, McKelvey KS, Wilcox TM, Bingham DM, Pilgrim KL, et al. (2016) Climate, demography, and zoogeography predict introgression thresholds in salmonid hybrid zones in Rocky Mountain streams. PLoS ONE 11(11): e0163563. doi:10.1371/journal.pone.0163563.

Young, Michael K.; Schmetterling, David A. 2009. Age-related seasonal variation in captures of stream-borne Boreal Toads (Bufo boreas boreas, Bufonidae) in western Montana. Copeia. 1: 117-124.

Young, Michael K.; McKelvey, Kevin S.; Pilgrim, Kristine L.; Schwartz, Michael K. 2013. DNA barcoding at riverscape scales: Assessing biodiversity among fishes of the genus Cottus (Teleostei) in northern Rocky Mountain streams. Molecular Ecology. doi: 10.1111/1755-0998.12091.

Young, Michael K.; McKelvey, Kevin S.; Jennings, Tara; Carter, Katie; Cronn, Richard; Keeley, Ernest R.; Loxterman, Janet L.; Pilgrim, Kristine L.; Schwartz, Michael K. 2018. The phylogeography of westslope cutthroat trout. In: Trotter, P.; Bisson, P.; Schultz, L.; Roper, B., eds. Cutthroat Trout: Evolutionary Biology and Taxonomy. Special Publication 36. Bethesda, MD: American Fisheries Society. p. 261-301.

Young, Michael K.; Schmetterling, David A. 2012. Movement and capture efficiency of radio-tagged salmonids sampled by electrofishing. North American Journal of Fisheries Management. 32: 823-831.

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