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several non-native species and when summer flow levels were relatively higher and cooler. We <br />then compare trends in native fish abundance over the same time periods. We attempt to sort out <br />the relative effects of expanding populations of non-native fishes on native ones as well as <br />changes in flow and temperature regimes between the periods 1994-1996 and 2002-2006, <br />particularly in 2005 and 2006 when non-native fish removals were increased (Christopherson et <br />al. 2005, this study). We also discuss means, in part, to understand the overlapping and <br />potentially confounding effects of simultaneous fish removal and flow and thermal regimes on <br />non-native and native fishes. <br />The reach of the Green River, Utah and Colorado, downstream of Flaming Gorge Dam <br />offers an opportunity to evaluate effectiveness of actions to re-establish native fishes. This is an <br />ideal study area because more natural hydrologic and temperature regimes designed to benefit <br />native fishes have been implemented over a series of years. The Green River also has a source <br />pool of native fishes downstream, including the mostly unregulated and tributary Yampa River <br />and regulation-attenuated downstream reaches of the Green River, to re-colonize upstream <br />reaches. Furthermore, descriptions of the fish community are available from immediate pre-dam <br />(pre-1962) and post-dam (1964-1966) periods, as well as before and after installation of a <br />temperature control device (1978-1980). Additional sampling was conducted from 1994 to 1996 <br />and in 2002-2004 that further evaluated changes in the fish community following <br />implementation of flow and temperature recommendations contained in biological opinions on <br />operation of Flaming Gorge Dam (U. S. Fish and Wildlife Service 1992, Bestgen and Crist 2000, <br />Muth et al. 2000, Bestgen et a1. 2006). <br />The newest set of flow and temperature recommendations for the Green River was <br />developed (Muth et al. 2000) and those recommendations were officially implemented in 2006 <br />(Record of Decision, U. S. Bureau of Reclamation, 2006). Annual peak and base flow <br />recommendations were developed for each of five hydrologic conditions that ranged from dry to <br />wet, based on exceedance probabilities: dry (90 to 100% exceedance), moderately dry (70 to <br />90% exceedance), average (30 to 70% exceedance), moderately wet (10-30% exceedance), and <br />wet (0-10% exceedance). Flaming Gorge Dam spring peak release recommendations range from <br />3 <br />