PIBO Publication Summary (doc) (pdf) 60 MB
Article: Al-Chochachy, R., A. M. Ray, B. B. Roper, and E. Archer. 2013. Exotic plant colonization and occupancy within riparian areas of the Interior Columbia and Upper Missouri River Basins, USA. Wetlands 33: 409-420.
Thesis: Goss, Lindsay. 2013. Masters Thesis. Utah State University. Livestock disturbance protocols: understanding the relationship between bank alteration and stream conditions.
Article: Menuz, D. R. and K. M. Kettenring. 2013. The importance of roads, nutrients, and climate for invasive plant establishment in riparian areas in the northwestern United States. Biological Invasions 15: 1601-1612.
Article: Roper, B. B., Kershner, J. L., and R. C. Henderson. 2013. The value of using permanent sites when evaluating stream attributes at the reach scale. Journal of Freshwater Ecology 18 (4): 585-592.
Article: Hough-Snee, N., B. B. Roper, J. M. Wheaton, P. Budy, R. L. Lokteff. 2013. Riparian vegetation communities change rapidly following passive restoration in a northern Utah stream. Ecological Engineering 58: 371-377.
Article: Ryan L. Lokteff , Brett B. Roper & Joseph M. Wheaton (2013): Do Beaver Dams Impede the Movement of Trout?; Transactions of the American Fisheries Society, 142:4, 1114-1125
(pdf) 2.81 MB
Article: Robert Al-Chokhachy, Andrew M. Ray, Brett B. Roper & Eric Archer (2012): Exotic Plant Colonization and Occupancy Within Riparian Areas of the Interior Columbia River and Upper Missouri River Basins, USA. SWS. Springer.
(pdf) 415 KB
Article/Short Communication: Nate Hough-Sneea, Brett B. Roper, and Joseph M. Wheaton, Phaedra Budy, Ryan L. Lokteff (2013): Riparian vegetation communities change rapidly following passive restoration at a northern Utah stream. Ecological Engineering 58 (2013) 371 377; Elsevier
(pdf) 740 KB
Article: Phaedra Budy, Sara Wood & Brett Roper (2012): A Study of the Spawning Ecology and Early Life History, Survival of Bonneville Cutthroat Trout. North American Journal of Fisheries Management, 32:3, 436-449p.
(pdf) 675 KB
Article: Archer, E. K., N. Hough-Snee, A. Van Wagenen, R. Lokteff, B. B. Roper. 2012. PACFISH/ INFISH Biological Opinion (PIBO) Effectiveness Monitoring Program and Invasive Plant Species Detection: A retrospective Summary 2003-2011. USDA Forest Service, Logan, UT. 26 pp.
Article: Al-Chokhachy, Robert, Brett B. Roper, Eric K. Archer, and Scott Miller. April 2011. Quantifying the Extent of and Factors Associated with the Temporal Variability of Physical Stream Habitat in Headwater Streams in the Interior Columbia River Basin. Transactions of the American Fisheries Society, 140. 15p.
(pdf) 386 MB
Article: Al-Chochachy, R. and B. Roper. 2011b. Different approaches to habitat surveys can impact fisheries management and conservation decisions. Fisheries 35(10) 476-488.
Thesis: Laine, Caroline. 2011. Masters Thesis. Utah State University. An assessment of vegetation metrics and plot types to measure seasonal variation and grazing effects on riparian plant communities.
Thesis: Menuz, Diane. 2011. Masters Thesis. Utah State University. Using species distribution models to assess invasion theory and provide management recommendations for riparian areas in the eastern Columbia and western Missouri River basins.
Article: Hill, Andrew. 2010. Masters Thesis. Utah State University. Assessing linkages among landscape characteristics, stream habitat, and macroinvertebrate communities in the Idaho batholith ecoregion.
Article: Kershner, Jeffrey L., and Brett B. Roper. June 2010. An Evaluation of Management Objectives Used to Assess Stream Habitat Conditions on Federal Lands within the Interior Columbia Basin. 9p.
(pdf) 635 MB
Article: Roper, Brett B., John Buffington, Stephen Bennett, Steven H. Lanigan, Eric Archer, etal. May 2010. A Comparions of the Performance and Compatibility of Protocols Used by Seven Monitoring Groups to Measure Stream Habitat in the Pacific Northwest. 22p.
(pdf) 593 MB
Thesis: Kyger, Chastine Daniel. James Madison University. December 2010. Fish Community Response to the Addition of Wood in Smith Creek, Virginia. 48p.
(pdf) 1.58 MB
Thesis: Trumbo, Bradley Allen. James Madison University. December 2010. Sensitivity and Exposure of Brook Trout (Salvelinus fontinalis) Habitat to Climate Change. 75p.
(pdf) 3.52 MB
Article: Trumbo, Brad, Mark Hudy, Eric P. Smith, Dong-Yun Kim, Bruce A. Wiggins, Keith H. Nislow, and Charles A. Dolloff. 2010. Sensitivity and Vulnerability of Brook Trout Populations to Climate Change. Journal of Publication TBA
(pdf) 124 KB
Article: Hudy, Mark, Jason A. Coombs, Keith H. Nislow, Benjamin H. Letcher. 2010. Dispersal and Within-Stream Spatial Population Structure of Brook Trout Revealed by Pedigree Reconstruction Analysis. Transactions of the American Fisheries Society 139: 1276-1287.
(pdf) 688 KB
TAFS - Available at AFS for a fee online (free to members)
Article: Al-Chokhachy, R., B.B. Roper, T. Bowerman, and P. Budy. 2010. A Review of Bull Trout habitat Associations and Exploratory Analyses of Patterns Across the Interior Columbia River Basin. North American Journal of Fisheries Management: 30:464-480.
(pdf) 255 KB
Article: Al-Chokhachy, R., B.B. Roper, and E. Archer. 2010. Using a Multimetric Approach to Evaluate the Abiotic Condition of Streams in the Upper Columbia and Missouri River basins. Transactions of the American Fisheries Society 139:1041-1059.
(pdf) 469 KB
TAFS - Available at AFS for a fee online (free to members)
Article: Hudy, Mark, Jeremy Shiflet. 2009. Movement and Recolonization of Potomac Sculpin in a Virginia Stream. American Journal of Fisheries Management 29:196-204
(pdf) 236 KB
Available at AFS for a fee
Article: Heitke, J.D., R.C. Henderson, B.B. Roper, and E.K. Archer. 2008. Evaluating Livestock Grazing Use with Streambank Alteration Protocols: Challenges and Solutions. Rangeland Ecology and Management 61:647-655.
(pdf) 424 KB
Article: Roper, B. B., J. M. Buffington, E. Archer, C. Moyer, and M. Ward. 2008. The Role of Observer Variation in Determining Rosgen Stream Types in Northeastern Oregon Mountain Streams. Journal of the American Water Resources Association 44:417-427.
Blackwell (pdf) 413 KB
Thesis: Shiflet, Jeremy Michael. James Madison University. May 2008. Habitat Selection and Spatiotemporal Patterns of Movement in a Fluvial Population of White Sucker (Catostomus commersoni). 45p.
(pdf) 1.35 MB
Thesis: Willey, K. Tara. James Madison University. September 2008. Environmental Factors Determining the Pre-Restoration Benthic Macroinvertebrate Assemblage In A Stream Used By Cattle. 49p.
(pdf) 1.75 MB
Article: Hudy, Mark, Teresa M. Thieling, Nathaniel Gillespie, Eric P. Smith. 2008. Distribution, Status, and Land Use Characteristics of Subwatersheds within the Native Range of Brook Trout in the Eastern United States. North American Journal of Fisheries Management 28:10691085
(pdf) 1.22 MB
Article: Zhang, Huizi, Teresa Thieling, Samantha C. Bates Prins, Eric P. Smith, Mark Hudy. 2008. Model-Based Clustering in a Brook Trout Classification Study within the Eastern United States. Transactions of the American Fisheries Society 137:841-851
(pdf) 172 KB
Thesis: Sweeten, Sara E. James Madison University. May 2008. Home Range, Hibernacula Fidelity, and Best Management Practices for Wood Turtles (Glyptemys insculpta) in Virginia. 98 p.
(pdf) 687 KB
Thesis: Fink, David Brad. James Madison University. May 2008. Artificial Shading and Stream Temperature Modeling for Watershed Restoration and Brook Trout (Salvenius fontinalis) Management. 34 p.
(pdf) 845 KB
Fish & Aquatic Ecology Unit Annual Report - 2007
28 pages; (pdf) 2.54 MB
Article: Whitacre, H.W., B.B. Roper, and J.L. Kershner. 2007. A Comparison of Protocols and Observer Precision for Measuring Physical Stream Attributes. Journal of American Water Resources Association 43:923-937.
(pdf) 198 KB
Article: Coles-Ritchie, Marc C., David W.Roberts, Jeffrey L. Kershner, Richard C. Henderson. 2007. Use of a Wetland Index to Evaluate Changes in Riparian Vegetation After Livestock Exclusion. Journal of the American Water Resources Association (JAWRA) 43(3):731-743.
(pdf) 687 KB
Article: Roper, Brett B, Beau Jarvis, Jeffrey L. Kershner. 2007. The Role of Natural Vegetative Disturbance in Determining Stream Reach Characteristics in Central Idaho and Western Montana. Northwest Science, Vol. 81, No. 3, 2007.
(pdf) 353 KB
Article: Hudy, Mark, Brett B. Roper, Nathaniel Gillespie. 2007. Large Scale Assessments: Lessons Learned for Native Trout Management. Proceedings of Wild Trout 9, West Yellowstone, MT October 2007.
(pdf) 99.4 MB
Thesis: Thieling, Teresa M. James Madison University. May 2006. Assessment and Predictive Model for Brook Trout (Salvelinus fontinalis) population status in the eastern United States. 65 p.
(pdf) 2.89 MB
Dissertation: Coles-Ritchie, Marc C. Utah State University. 2005. Evaluation of Riparian Vegetation Data and Associated Sampling Techniques. 184 p.
(pdf) 2.97 MB
Article: Henderson, Richard C., Eric K. Archer, Boyd A. Bouwes, Marc S. Coles-Ritchie, Jeffrey L. Kershner. 2005. PACFISH/INFISH Biological Opinion (PIBO): Effectiveness Monitoring Program seven-year status report 1998 through 2004. Gen. Tech. Rep. RMRS-GTR-162. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 16 p.
(pdf) 2.89 KB
Article: Olsen, D.S., B.B. Roper, J.L. Kershner, R. Henderson, and E. Archer. 2005. Sources Of Variability In Conducting Pebble Counts: Their Potential Influence On The Results Of Stream Monitoring Programs. Journal of The American Water Resources Association: 41(5):1225-1236.
Article: Colyer, W.T., J.L. Kershner, and R.H. Hilderbrand. 2005. Movements of fluvial Bonneville cutthroat trout in the Thomas Fork of the Bear River, Idaho-Wyoming. North American Journal of Fisheries Management: 25: 954-963.
(pdf) 79 KB
Thesis: Coffman, Joseph Seth. James Madison University. May 2005. Evaluation of a Predictive Model for Upstream Fish Passage Through Culverts.
(pdf) 1.84 MB
Fish & Aquatic Ecology Unit Annual Report - 2004
Kershner, J., B. B. Roper, R.C. Henderson, E.K. Archer.
pdf 1.99 MB doc 168 MB 35 pages
Dissertation: Rivera, Samuel. Utah State University. 2004. Testing Forestry Best Management Practices for Protecting Water Quality in Honduras. 140 p.
(pdf) 1.16MB (doc) 970KB
Article: Coles-Ritchie, M.C., R.C. Henderson, E.K. Archer, C. Kennedy, J.L. Kershner. 2004. Repeatability of Riparian Vegetation Sampling Methods: How Useful Are These Techniques for Broad-Scale, Long-Term Monitoring? General Technical Report RMRS-GTR-138. USDA Forest Service, Rocky Mountain Research Station, Fort Collins, CO. 24p.
(pdf) RMRS_GTR_138 464 KB
Thesis: Whitacre, Heath W. Utah State University. 2004. Comparison of Protocols and Observer Precision for Measuring Physical Habitat Attributes of Streams in Oregon and Idaho. 69p.
(pdf) 254 MB
Article: Kershner, J.L., B.B. Roper, N. Bouwes, R. Henderson, and E. Archer. 2004. An Analysis of Stream Habitat Conditions in Reference and Managed Watersheds on Some Federal Lands within the Columbia River Basin. North American Journal of Fisheries Management 24: 1363-1375.
(pdf) 92.5 KB
Article: Hilderbrand, R.H., J.L. Kershner. 2004. Are There Differences in Growth and Conditions Between Mobile and Resident Cutthroat Trout? Transactions of the American Fisheries Society: Notes 133:1042-1046.
(pdf) 59.5 KB
Article: M. Hudy, T. M. Thieling, and J. K. Whalen. 2004. A Large-scale Risk Assessment of the Biotic Integrity of Native Brook Trout Watersheds. Wild Trout VIII Symposium.
(pdf) 420 KB (doc) 1.78 MB
Thesis: Whalen, James Keith. James Madison University. May 2004.A Risk Assessment for Crayfish Conservation on National Forest Lands in the Eastern United States.
(pdf) 10.7 KB
Article: Bragg, D.C., J.L. Kershner. 2004. Sensitivity of a Riparian Large Woody Debris Recruitment Model to the Number of Contributing Banks and Tree Fall Pattern. Western Journal of Applied Forestry 19(2): 117-122.
(pdf) 540 KB
Article: Archer, E.K., B.B. Roper, R.C. Henderson, J.L. Kershner, and S.C. Mellison. 2004. Testing common stream sampling methods: How useful are these techniques for broad-scale, long-term monitoring? General Technical Report RMRS-GTR-122. USDA Forest Service, Rocky Mountain Research Station, Fort Collins, CO. 15p.
(pdf) RMRS-GTR-122 270 KB
Article: Hilderbrand, R. H., and J. L. Kershner. 2004. Influence of habitat type on food supply, selectivity, and diet overlap of Bonneville cutthroat trout and non-native brook trout in Beaver Creek, Idaho. North American Journal of Fisheries Management 24:33-40.
(pdf) 65.1 KB
Article: Kershner, J.L., M. Coles-Ritchie, E.Cowley, R.C. Henderson, K. Kratz, C. Quimby, D.M. Turner, L.C. Ulmer, and M.R. Vinson. 2004. Guide to Effective Monitoring of Aquatic and Riparian Resources. General Technical Report, RMRS-GTR-121, USDA, Forest Service, Rocky Mountain Research Station, Fort Collins, CO.
(pdf) RMRS-GTR-121 3.65 MB
Article: Roper, B.B., J.L. Kershner, and R.C. Henderson. 2003. The value of using permanent sites when evaluating stream attributes at the reach scale. Journal of Freshwater Ecology 18: 585-592.
(pdf) 169 KB
Article: Bisson, P.A., B.R. Rieman, C.Luce, P.F. Hessburg, J.L. Kershner, G.H. Reeves, and R.H. Gresswell. 2003. Fire and Aquatic Ecosystems: Current Knowledge and Key Questions. Forest Ecology and Management 178:213-229.
pdf link in Treesearch
Article: Reich, M., J.L. Kershner, and R.C. Wildman. 2003. Restoring streams with large wood: a synthesis. Pages 355-366 in S.V. Gregory, K.L. Boyer, and A.M. Gurnell, editors. The ecology and management of wood in world Rivers. American Fisheries, Society Symposium 37, Bethesda, Maryland.
(pdf) 59.3 KB
Article: Kershner, J.L., L. MacDonald, Z. Libohova, L.M. Decker, and D. Winters. 2003. Where are aquatic ecosystems likely to be changed by the Hayman fire and how will the changes be manifested on the landscape/watershed? In R. Graham, ed., A case study analysis of the Hayman Fire. General Technical Report RMRS-GTR 114, USDA Forest Service, Rocky Mountain Research Station, Fort Collins, CO.
Article: Decker, L.M., J.L. Kershner, and D. Winters. 2003. Historical Aquatic Systems. In R. Graham, ed., A case study analysis of the Hayman Fire. General Technical Report RMRS-GTR 114, USDA Forest Service, Rocky Mountain Research Station, Fort Collins, CO.
Article: Roper, Brett B. , Jeffrey L. Kershner, Eric Archer, Richard Henderson, and Nicolaas Bouwes. 2002. An Evaluation of Physical Stream Habitat Attributes Used to Monitor Streams. Journal of the American Water Resources Association (JAWRA) Vol. 38, No. 6:1637-1646.
(pdf) 106 KB
PIBO :: Reports - Protocols - Documents
PIBO Publication Summary (doc) (pdf) 60 MB
PIBO Riparian Vegetation Sampling Protocol pdf 2.23 MB
PIBO Stream Sampling Protocol pdf 3.42 MB
Annual Report PDF 1.31 MB