Barbour, M.T., J. Gerritsen, B.D. Snyder & J.B. Stribling, 1999. Appendix B, of Rapid bioassessment protocols for use in streams and wadeable rivers: periphyton, benthic macroinvertebrates, and fish. 2nd edition. EPA 841-B-99-002, US Environmental Protection Agency, Office of Water, Washington, D.C.
Benjamini, Y. & Y. Hochberg, 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. Journal of the Royal Statistical Society Series B 57: 289–300.
Benke, A. C., A. D. Huryn, L. A. Smock & J. B. Wallace, 1999. Length-mass relationships for freshwater macroinvertebrates in North America with particular reference to the southeastern United States. Journal of the North American Benthological Society 18: 308–343.
Boersma, K. S., L. E. Dee, S. J. Miller, M. T. Bogan, D. A. Lytle & A. I. Gitelman, 2016. Linking multidimensional functional diversity to quantitative methods: a graphical hypothesis-evaluation framework. Ecology 97: 583–593.
Bogan, M. T. & D. A. Lytle, 2007. Seasonal flow variation allows ‘time-sharing’ by disparate aquatic invertebrate communities in montane desert streams. Freshwater Biology 52: 290–304.
Bonada, N., M. Rieradevall, N. Prat & V. H. Resh, 2006. Benthic macroinvertebrate assemblages and macrohabitat connectivity in Mediterranean-climate streams of northern California. Journal of the North American Benthological Society 25: 32–43.
Brown, A. V. & P. P. Brussock, 1991. Comparisons of benthic invertebrates between riffles and pools. Hydrobiologia 220: 99–108.
Brussock, P. P. & A. V. Brown, 1991. Riffle-pool geomorphology disrupts longitudinal patterns of stream benthos. Hydrobiologia 220: 109–117.
Brussock, P. P., A. V. Brown & J. C. Dixon, 1985. Channel form and stream ecosystem models. Water Resources Bulletin 21: 859–866.
Carter, J. L. & S. V. Fend, 2001. Inter-annual changes in the benthic community structure of riffles and pools in reaches of contrasting gradient. Hydrobiologia 459: 187–200.
Carter, J. L. & V. H. Resh, 2001. After site selection and before data analysis: sampling, sorting and laboratory procedures used in benthic macroinvertebrate monitoring programs by USA state agencies. Journal of the North American Benthological Society 20: 658–682.
Chevenet, F., S. Dolédec & D. Chessel, 1994. A fuzzy coding approach for the analysis of long-term ecological data. Freshwater Biology 31: 295–309.
Cooper, S. D. & T. L. Dudley, 1988. The interpretation of “controlled” vs “natural” experiments in streams. Oikos 52: 357–361.
Cooper, S. D., H. M. Page, S. W. Wiseman, K. Klose, D. Bennett, T. Even, S. Sadro, C. E. Nelson & T. L. Dudley, 2015. Physicochemical and biological responses of streams to wildfire severity in riparian zones. Freshwater Biology 60: 2600–2619.
Cummins, K. W., R. W. Merritt & M. B. Berg, 2008. Ecology and distribution of aquatic insects. In Merritt, R. W., K. W. Cummins & M. B. Berg (eds), An Introduction to the Aquatic Insects of North America, 4th ed. Kendall/Hunt Publishing Company, Dubuque: 105–122.
da Silva, M. V. D., B. F. J. V. Rosa & R. G. Alves, 2015. Effect of mesohabitats on responses of invertebrate community structure in streams under different land uses. Environmental Monitoring and Assessment 187: 714.
Finlay, J. C., S. Khandwala & M. E. Power, 2002. Spatial scales of carbon flow in a river food web. Ecology 83: 1845–1859.
Frissell, C. A., W. J. Liss, C. E. Warren & M. D. Hurley, 1986. A hierarchical framework for stream habitat classification: viewing streams in watershed context. Environmental Management 10: 199–214.
Gordon, N. D., T. A. McMahon, B. L. Finlayson, C. J. Gippel & R. J. Nathan, 2004. Stream Hydrology, An Introduction for Ecologists, 2nd ed. Wiley, West Sussex.
Herbst, D. B., E. L. Silldorff & S. D. Cooper, 2009. The influence of introduced trout on the benthic communities of paired headwater streams in the Sierra Nevada of California. Freshwater Biology 54: 1324–1342.
Hilsenhoff, W. L., 1991. Chapter 17. Diversity and classification of insects and Collembola. In Thorp, J. H. & A. P. Covich (eds), Ecology and Classification of North American Freshwater Invertebrates. Academic Press, San Diego: 593–663.
Hunsaker, C. T., T. W. Whitaker & R. C. Bales, 2012. Snowmelt runoff and water yield along elevation and temperature gradients in California’s southern Sierra Nevada. Journal of the American Water Resources Association 48: 667–678.
Huryn, A. D. & J. B. Wallace, 1987. Local geomorphology as a determinant of macrofaunal production in a mountain stream. Ecology 68: 1932–1942.
Johnson, D. W., C. T. Hunsaker, D. W. Glass, B. M. Rau & B. A. Roath, 2011. Carbon and nutrient contents in soils from the Kings River Experimental Watersheds, Sierra Nevada Mountains, California. Geoderma 160: 490–502.
Kaufman, P.R., P. Levine, E.G. Robison, C. Seeliger & D.V. Peck, 1999. Quantifying physical habitat in wadeable streams. EPA 620/R-99/003, US Environmental Protection Agency, Office of Water, Washington, D.C.
Keller, E. A., 1971. Areal sorting of bed-load material: the hypothesis of velocity reversal. Geological Society of America Bulletin 82: 753–756.
Leopold, L. B., M. G. Wolman & J. P. Miller, 1964. Fluvial Processes in Geomorphology. Freeman and Company, San Francisco.
Logan, P. & M. P. Brooker, 1983. The macroinvertebrate faunas of riffles and pools. Water Research 17: 263–270.
MacWilliams, M. L., J. M. Wheaton, G. B. Pasternack, R. L. Street & P. K. Kitanidis, 2006. Flow convergence routing hypothesis for pool-riffle maintenance in alluvial rivers. Water Resources Research 42: W10427.
Mazor, R. D., A. C. Rehn, P. R. Ode, M. Engeln, K. C. Schiff, E. D. Stein, D. J. Gillett, D. B. Herbst & C. P. Hawkins, 2016. Bioassessment in complex environments: designing an index for consistent meaning in different settings. Freshwater Science 35: 249–271.
Merritt, R. W., K. W. Cummins & M. B. Berg (eds), 2008. An Introduction to the Aquatic Insects of North America, 4th ed. Kendall/Hunt Publishing Company, Dubuque.
Montgomery, D. R., 1999. Process domains and the river continuum. Journal of the American Water Resources Association 35: 397–410.
Montgomery, D. R. & J. M. Buffington, 1997. Channel reach morphology in mountain drainage basins. Geological Society of American Bulletin 109: 596–611.
O’Dowd, A. P. & A. Chin, 2016. Do bio-physical attributes of steps and pools differ in high-gradient mountain streams? Hydrobiologia 776: 67–83.
Ode, P. R., A. C. Rehn, R. D. Mazor, K. C. Schiff, E. D. Stein, J. T. May, L. R. Brown, D. B. Herbst, D. Gillett, K. Lunde & C. P. Hawkins, 2016. Evaluating the adequacy of a reference-site pool for ecological assessments in environmentally complex regions. Freshwater Science 35: 237–248.
Poff, N. L. & J. V. Ward, 1990. Physical habitat template of lotic systems: recovery in the context of historical pattern and spatiotemporal heterogeneity. Environmental Management 14: 629–645.
Poff, N. L., J. D. Olden, N. K. M. Vieira, D. S. Finn, M. P. Simmons & B. C. Kondratieff, 2006. Functional trait niches of North American lotic insects: traits-based ecological applications in light of phylogenetic relationships. Journal of the North American Benthological Society 25: 730–755.
Poole, G. C., 2002. Fluvial landscape ecology: addressing uniqueness within the river discontinuum. Freshwater Biology 47: 641–660.
Rosi-Marshall, E. J., K. L. Vallis, C. V. Baxter & J. M. Davis, 2016. Retesting a prediction of the River Coninuum Concept: authochthonous versus allochthonous resources in the diets of invertebrates. Freshwater Science 35: 534–543.
Roy, A. H., A. D. Rosemond, D. S. Leigh, M. J. Paul & J. B. Wallace, 2003. Habitat-specific responses of stream insects to land cover disturbance: biological consequences and monitoring implications. Journal of the North American Benthological Society 22: 292–307.
Silldorff, E., 2003. Stream invertebrate responses to trout introductions: results from large-scale studies in the central Sierra Nevada and Yosemite National Park. Ph.D. Thesis, University of California, Santa Barbara, CA.
Stanley, E. H., S. G. Fisher & N. B. Grimm, 1997. Ecosystem expansion and contraction in streams. BioScience 47: 427–435.
Statzner, B. & L. Bêche, 2010. Can biological invertebrate traits resolve effects of multiple stressors on running water ecosystems? Freshwater Biology 55(s1): 80–119.
Statzner, B. & B. Higler, 1986. Stream hydraulics as a major determinant of benthic invertebrate zonation patterns. Freshwater Biology 16: 127–139.
Townsend, C. R., 1989. The patch dynamics concept of stream community ecology. Journal of the North American Benthological Society 8: 36–50.
Townsend, C. R. & A. G. Hildrew, 1994. Species traits in relation to a habitat templet for river systems. Freshwater Biology 31: 265–275.
U.S. Environmental Protection Agency (USEPA), 2013. National Rivers and Streams Assessment 2013-2014: field Operations Manual—Wadeable. EPA-841-B-12-007. U.S. Environmental Protection Agency, Office of Water, Washington, D.C.
Vieira, N.K.M., N.L. Poff, D.M. Carlisle, S.R. Moulton II, M.L. Koski & B.C. Kondratieff, 2006. A database of lotic invertebrate traits for North America. US Geological Survey Data Series 187, http://pubs.water.usgs.gov/ds187.
Winemiller, K. O., A. S. Flecker & D. J. Hoeinghaus, 2010. Patch dynamics and environmental heterogeneity in lotic ecosystems. Journal of the North American Benthological Society 29: 84–99.
Yuan, L.L. 2006. Estimation and application of macroinvertebrate tolerance values. EPA/600/P-04/116-F, US Environmental Protection Agency, National Center for Environmental Assessment, Washington, D.C.