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• 341. [Image] An assessment of ecosystem components in the interior Columbia Basin and portions of the Klamath and Great Basins [volume 2]

  	Abstract Quigley, Thomas M.; Arbelbide, Sylvia J., tech. eds. 1997. An assessment of ecosystem components in the interior Columbia basin and portions of the Klamath and Great Basins: volume 2. Gen. Tech. ...
  	Citation × Citation Citation Abstract Copy Title: An assessment of ecosystem components in the interior Columbia Basin and portions of the Klamath and Great Basins [volume 2] Author: Quigley, Thomas Milton; Arbelbide, S. J. (Sylvia J.) Year: 1997, 2008, 2005 Abstract Quigley, Thomas M.; Arbelbide, Sylvia J., tech. eds. 1997. An assessment of ecosystem components in the interior Columbia basin and portions of the Klamath and Great Basins: volume 2. Gen. Tech. Rep. PNW-GTR-405. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. 4 vol. (Quigley, Thomas M., tech. ed.; The Interior Columbia Basin Ecosystem Management Project: Scientific Assessment). The Assessment of Ecosystem Components in the Interior Columbia Basin and Portions of the Klamath and Great Basins provides detailed information about current conditions and trends for the biophysical and social systems within the Basin. This information can be used by land managers to develop broad land management goals and priorities and provides the context for decisions specific to smaller geographic areas. The Assessment area covers about 8 percent of the U.S. land area, 24 percent of the Nations National Forest System lands, 10 percent of the Nations BLM-administered lands, and contains about 1.2 percent of the Nations population. This results in a population density that is less than one-sixth of the U.S. average. The area has experienced recent, rapid population growth and generally has a robust, diverse economy. As compared to historic conditions, the terrestrial, aquatic, forest, and rangeland systems have undergone dramatic changes. Forested landscapes are more susceptible to fire, insect, and disease than under historic conditions. Rangelands are highly susceptible to noxious weed invasion. The disturbance regimes that operate on forest and rangeland have changed substantially, with lethal fires dominating many areas where non-lethal fires were the norm historically. Terrestrial habitats that have experienced the greatest decline include the native grassland, native shrubland, and old forest structures. There are areas within the Assessment area that have higher diversity than others. Aquatic systems are now more fragmented and isolated than historically and the introduction of non-native fish species has complicated current status of native fishes. Core habitat and population centers do remain as building blocks for restoration. Social and economic conditions within the Assessment area vary considerably, depending to a great extent on population, diversity of employment opportunities, and changing demographics. Those counties with the higher population densities and greater diversity of employment opportunities are generally more resilient to economic downturns. This Assessment provides a rich information base, including over 170 mapped themes with associated models and databases, from which future decisions can benefit. Keywords: Columbia basin, biophysical systems, social systems, ecosystem. Title: An assessment of ecosystem components in the interior Columbia Basin and portions of the Klamath and Great Basins [volume 2] Author: Quigley, Thomas Milton; Arbelbide, S. J. (Sylvia J.) Year: 1997, 2008, 2005 Abstract Quigley, Thomas M.; Arbelbide, Sylvia J., tech. eds. 1997. An assessment of ecosystem components in the interior Columbia basin and portions of the Klamath and Great Basins: volume 2. Gen. Tech. Rep. PNW-GTR-405. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. 4 vol. (Quigley, Thomas M., tech. ed.; The Interior Columbia Basin Ecosystem Management Project: Scientific Assessment). The Assessment of Ecosystem Components in the Interior Columbia Basin and Portions of the Klamath and Great Basins provides detailed information about current conditions and trends for the biophysical and social systems within the Basin. This information can be used by land managers to develop broad land management goals and priorities and provides the context for decisions specific to smaller geographic areas. The Assessment area covers about 8 percent of the U.S. land area, 24 percent of the Nations National Forest System lands, 10 percent of the Nations BLM-administered lands, and contains about 1.2 percent of the Nations population. This results in a population density that is less than one-sixth of the U.S. average. The area has experienced recent, rapid population growth and generally has a robust, diverse economy. As compared to historic conditions, the terrestrial, aquatic, forest, and rangeland systems have undergone dramatic changes. Forested landscapes are more susceptible to fire, insect, and disease than under historic conditions. Rangelands are highly susceptible to noxious weed invasion. The disturbance regimes that operate on forest and rangeland have changed substantially, with lethal fires dominating many areas where non-lethal fires were the norm historically. Terrestrial habitats that have experienced the greatest decline include the native grassland, native shrubland, and old forest structures. There are areas within the Assessment area that have higher diversity than others. Aquatic systems are now more fragmented and isolated than historically and the introduction of non-native fish species has complicated current status of native fishes. Core habitat and population centers do remain as building blocks for restoration. Social and economic conditions within the Assessment area vary considerably, depending to a great extent on population, diversity of employment opportunities, and changing demographics. Those counties with the higher population densities and greater diversity of employment opportunities are generally more resilient to economic downturns. This Assessment provides a rich information base, including over 170 mapped themes with associated models and databases, from which future decisions can benefit. Keywords: Columbia basin, biophysical systems, social systems, ecosystem. Close

• 342. [Image] Status of Oregon's bull trout : distribution, life history, limiting factors, management considerations, and status

  	EXECUTIVE SUMMARY Limited historical references indicate that bull trout Salvelinus confluentus in Oregon were once widely spread throughout at least 12 basins in the Klamath River and Columbia River ...
  	Citation × Citation Citation Abstract Copy Title: Status of Oregon's bull trout : distribution, life history, limiting factors, management considerations, and status Author: Buchanan, David V; Hanson, Mary L; Hooton, Robert M Year: 1997, 2007, 2005 EXECUTIVE SUMMARY Limited historical references indicate that bull trout Salvelinus confluentus in Oregon were once widely spread throughout at least 12 basins in the Klamath River and Columbia River systems. No bull trout have been observed in Oregon's coastal systems. A total of 69 bull trout populations in 12 basins are currently identified in Oregon. A comparison of the 1991 bull trout status (Ratliff and Ho well 1992) to the revised 1996 status found that 7 populations were newly discovered and 1 population showed a positive or upgraded status while 22 populations showed a negative or downgraded status. The general downgrading of 32% of Oregon's bull trout populations appears largely due to increased survey efforts and increased survey accuracy rather than reduced numbers or distribution. However, three populations in the upper Klamath Basin, two in the Walla Walla Basin, and one in the Willamette Basin showed decreases in estimated population abundance or distribution. Some Oregon river basins have bull trout populations at extreme risk of extinction. This statewide status review listed only 19% of the bull trout populations in Oregon with a ulow risk of extinction" or "of special concern." Therefore, 81% of Oregon's bull trout populations are considered to be at a "moderate risk of extinction," "high risk of extinction," or "probably extinct." Populations in the Hood, Klamath, and Powder basins, as well as the Odell Lake population in the Deschutes basin, which contain only a few remaining bull trout, are examples of populations having a "moderate" or "high risk" of extinction. Approximately 55% of current bull trout distribution occurs on lands managed by the U.S. Forest Service. A much smaller proportion occurs on Bureau of Land Management managed lands (2%). Only 16% of current bull trout distribution occurs within a protected area defined as Wilderness, Wild and Scenic River, or within a National Park. The Northwest Forest Plan, Inland Native Fish Strategy, and Interim Strategies for Managing Anadromous Fish-producing Watersheds in Eastern Oregon and Washington, Idaho, and Portions of California have provided increased protection for bull trout habitat depending on their scope and geographic areas affected, and the extent to which they are being effectively implemented in watersheds containing bull trout. Recent reduction in timber production on National Forests (up to 50% in western Oregon National Forests and over 30% in eastern Oregon National Forests) should help improve riparian and stream habitat conditions for bull trout. The remaining bull trout distribution occurs on private, state, or tribal owned lands. A comparison of approximately 39 locations throughout the state with protective angling regulations on bull trout (in some areas more than one bull trout population is protected by one regulation) shows that all state managed areas were upgraded in a protective angling status or at least maintained in 1996 compared to 1989. Restrictive angling regulations prohibit angler harvest of all bull trout populations in Oregon except for one in the Deschutes Basin. Restrictive bull trout angling regulation changes (including the elimination of bull Vll trout harvest in all spawning areas) may be the major reasons why the Metolius River/Lake Billy Chinook and mainstem McKenzie River populations have shown significant increases in abundance. Statewide stocking of non-native brook trout, including the high lakes stocking program, has been discontinued in locations where managers believe brook trout could migrate downstream and potentially interact with native bull trout. Hatchery stocking of legal rainbow trout to promote recreational fisheries has been discontinued in most locations near bull trout populations to avoid incidental catch of bull trout. The spatial and temporal distributions of bull trout reported for each river basin in this status report should be used as an accurate baseline for fisheries managers. Current distribution and relative change of distribution should be useful indicators of population health and status. The GIS maps in this report provide a template to add new layers of data such as critical spawning and juvenile rearing areas, or as a method to compare distribution changes through time. Length frequency data are presented for most Oregon bull trout populations. This should provide estimates for the presence of multiple age classes and the percent of fluvial size life history component. Vlll Title: Status of Oregon's bull trout : distribution, life history, limiting factors, management considerations, and status Author: Buchanan, David V; Hanson, Mary L; Hooton, Robert M Year: 1997, 2007, 2005 EXECUTIVE SUMMARY Limited historical references indicate that bull trout Salvelinus confluentus in Oregon were once widely spread throughout at least 12 basins in the Klamath River and Columbia River systems. No bull trout have been observed in Oregon's coastal systems. A total of 69 bull trout populations in 12 basins are currently identified in Oregon. A comparison of the 1991 bull trout status (Ratliff and Ho well 1992) to the revised 1996 status found that 7 populations were newly discovered and 1 population showed a positive or upgraded status while 22 populations showed a negative or downgraded status. The general downgrading of 32% of Oregon's bull trout populations appears largely due to increased survey efforts and increased survey accuracy rather than reduced numbers or distribution. However, three populations in the upper Klamath Basin, two in the Walla Walla Basin, and one in the Willamette Basin showed decreases in estimated population abundance or distribution. Some Oregon river basins have bull trout populations at extreme risk of extinction. This statewide status review listed only 19% of the bull trout populations in Oregon with a ulow risk of extinction" or "of special concern." Therefore, 81% of Oregon's bull trout populations are considered to be at a "moderate risk of extinction," "high risk of extinction," or "probably extinct." Populations in the Hood, Klamath, and Powder basins, as well as the Odell Lake population in the Deschutes basin, which contain only a few remaining bull trout, are examples of populations having a "moderate" or "high risk" of extinction. Approximately 55% of current bull trout distribution occurs on lands managed by the U.S. Forest Service. A much smaller proportion occurs on Bureau of Land Management managed lands (2%). Only 16% of current bull trout distribution occurs within a protected area defined as Wilderness, Wild and Scenic River, or within a National Park. The Northwest Forest Plan, Inland Native Fish Strategy, and Interim Strategies for Managing Anadromous Fish-producing Watersheds in Eastern Oregon and Washington, Idaho, and Portions of California have provided increased protection for bull trout habitat depending on their scope and geographic areas affected, and the extent to which they are being effectively implemented in watersheds containing bull trout. Recent reduction in timber production on National Forests (up to 50% in western Oregon National Forests and over 30% in eastern Oregon National Forests) should help improve riparian and stream habitat conditions for bull trout. The remaining bull trout distribution occurs on private, state, or tribal owned lands. A comparison of approximately 39 locations throughout the state with protective angling regulations on bull trout (in some areas more than one bull trout population is protected by one regulation) shows that all state managed areas were upgraded in a protective angling status or at least maintained in 1996 compared to 1989. Restrictive angling regulations prohibit angler harvest of all bull trout populations in Oregon except for one in the Deschutes Basin. Restrictive bull trout angling regulation changes (including the elimination of bull Vll trout harvest in all spawning areas) may be the major reasons why the Metolius River/Lake Billy Chinook and mainstem McKenzie River populations have shown significant increases in abundance. Statewide stocking of non-native brook trout, including the high lakes stocking program, has been discontinued in locations where managers believe brook trout could migrate downstream and potentially interact with native bull trout. Hatchery stocking of legal rainbow trout to promote recreational fisheries has been discontinued in most locations near bull trout populations to avoid incidental catch of bull trout. The spatial and temporal distributions of bull trout reported for each river basin in this status report should be used as an accurate baseline for fisheries managers. Current distribution and relative change of distribution should be useful indicators of population health and status. The GIS maps in this report provide a template to add new layers of data such as critical spawning and juvenile rearing areas, or as a method to compare distribution changes through time. Length frequency data are presented for most Oregon bull trout populations. This should provide estimates for the presence of multiple age classes and the percent of fluvial size life history component. Vlll Close

• 343. [Image] Federal Register - Endangered and Threatened Wildlife and Plants; Notice of Revised 90-Day Petition Finding and Initiation of a 5-Year Status Review of the Lost River Sucker and Shortnose Sucker

  	We, the U.S. Fish and Wildlife Service (Service), announce a revised 90-day finding for a petition to remove the Lost River sucker [Deltistes luxatus) and shortnose sucker [Chasmistes brevirostris) throughout ...
  	Citation × Citation Citation Abstract Copy Title: Federal Register - Endangered and Threatened Wildlife and Plants; Notice of Revised 90-Day Petition Finding and Initiation of a 5-Year Status Review of the Lost River Sucker and Shortnose Sucker Author: Larsen, Ron Year: 2004, 2008, 2005 We, the U.S. Fish and Wildlife Service (Service), announce a revised 90-day finding for a petition to remove the Lost River sucker [Deltistes luxatus) and shortnose sucker [Chasmistes brevirostris) throughout their ranges from the Federal List of Threatened and Endangered Wildlife and Plants (List), pursuant to the Endangered Species Act (Act) (16 U.S.C. 1531 et seq.). We find that the petition does not present substantial scientific or commercial information indicating that delisting of the Lost River and shortnose suckers may be warranted. As a result of the 1995, 1996, and 1997 fish die-offs, the endangered suckers experienced significant losses of thousands of adult suckers and have not recovered. Although the petition and information in our files do not provide new information relevant to the status of the Lost River and shortnose suckers, we are initiating a 5-year review of these species under section 4(c)(2)(A) of the Act to consider any new information that has become available as a result of recent actions to reduce threats to the species, and to provide the States, tribes, agencies, university researchers, and the public an opportunity to provide information on the status of the species. We are requesting any new information on the Lost River and shortnose suckers since their original listing as endangered species in 1988 (53 FR 27130) Title: Federal Register - Endangered and Threatened Wildlife and Plants; Notice of Revised 90-Day Petition Finding and Initiation of a 5-Year Status Review of the Lost River Sucker and Shortnose Sucker Author: Larsen, Ron Year: 2004, 2008, 2005 We, the U.S. Fish and Wildlife Service (Service), announce a revised 90-day finding for a petition to remove the Lost River sucker [Deltistes luxatus) and shortnose sucker [Chasmistes brevirostris) throughout their ranges from the Federal List of Threatened and Endangered Wildlife and Plants (List), pursuant to the Endangered Species Act (Act) (16 U.S.C. 1531 et seq.). We find that the petition does not present substantial scientific or commercial information indicating that delisting of the Lost River and shortnose suckers may be warranted. As a result of the 1995, 1996, and 1997 fish die-offs, the endangered suckers experienced significant losses of thousands of adult suckers and have not recovered. Although the petition and information in our files do not provide new information relevant to the status of the Lost River and shortnose suckers, we are initiating a 5-year review of these species under section 4(c)(2)(A) of the Act to consider any new information that has become available as a result of recent actions to reduce threats to the species, and to provide the States, tribes, agencies, university researchers, and the public an opportunity to provide information on the status of the species. We are requesting any new information on the Lost River and shortnose suckers since their original listing as endangered species in 1988 (53 FR 27130) Close

• 344. [Image] Evaluation of Interim Instream Flow Needs in the Klamath River Phase II Final Report

  	1 Acknowledgements 2 3 The completion of this work in large part can be attributed to the efforts of the 4 U.S. Fish and Wildlife Service Arcata Field Office staff and in particular to Mr. 5 Thomas Shaw ...
  	Citation × Citation Citation Abstract Copy Title: Evaluation of Interim Instream Flow Needs in the Klamath River Phase II Final Report Author: Hardy, Thomas B; Addley. R. Craig Year: 2001, 2008, 2005 1 Acknowledgements 2 3 The completion of this work in large part can be attributed to the efforts of the 4 U.S. Fish and Wildlife Service Arcata Field Office staff and in particular to Mr. 5 Thomas Shaw for providing much of the supporting site-specific field data, 6 habitat mapping, and fisheries data used in the analyses. The efforts of the 7 various Tribal fisheries personnel were critical in supplying additional fisheries 8 collection data, and intensive site substrate and cover mapping. In particular, the 9 efforts of Tim Hayden, Charlie Chamberlain and Mike Belchik. USGS personnel 10 from the Midcontinent Ecological Science Center also provided valuable 11 assistance and field data used in the cross section based hydraulic and habitat 12 modeling. Mr. Gary Smith and Mike Rode of the California Department of Fish 13 and Game also provided critical information on site-specific habitat suitability 14 criteria and conceptual foundations for the escape cover analysis used in the 15 habitat simulations. Much of this work was also supported by work of Tim 16 Harden (Harden and Associates). The Bureau of Reclamation also provided 17 valuable input during the Phase II study process on Klamath Project operations. 18 A special thanks is also given to Mr. Mike Deas (U.C. Davis) for providing water 19 temperature simulations below Iron Gate Dam. The Technical Team also 20 provided critical input and review of all technical elements of this work as well as 21 providing reviews of the report. Finally, the completion of this work would not 22 have been possible without the tireless efforts of Jennifer Ludlow, Mark 23 Winkelaar, James Shoemaker, Shannon Clemens, Jerilyn Brunson, William 24 Bradford, Sarah Blake, Brandy Blank, Matt Combes, Leon Basdekas, and Aaron 25 Hardy at the Institute for Natural Systems Engineering, Utah State University. 26 27 Executive Summary 28 29 Previous instream flow recommendations developed as part of Phase I (Hardy, 30 1999) recommended interim instream flows in the main stem Klamath River 31 based on analyses of hydrology data. At that time, site-specific data suitable for 32 analysis and evaluation using habitat based modeling were not available. This 33 report details the analytical approach and modeling results from site-specific 34 studies conducted within the main stem Klamath River below Iron Gate Dam 35 downstream to the estuary. Study results are utilized to make revised interim 36 instream flow recommendations necessary to protect the aquatic resources 37 within the main stem Klamath River between Iron Gate and the estuary. This 38 report also makes specific recommendations for future research needs as part of 39 the on-going strategic instream flow studies being undertaken by the U.S. Fish 40 and Wildlife Service and collaborating private, local, state, federal, and tribal 41 entities. 42 43 This report was developed for the Department of the Interior (DOI) who provided 44 access to a technical review team composed of representatives of the U.S. Fish 45 and Wildlife Service, Bureau of Reclamation, Bureau of Indian Affairs, U.S. 46 Geological Survey, and the National Marine Fisheries Service. The technical Draft - Subject to Change 1 review team also included participation by the Yurok, Hoopa Valley, and Karuk 2 Tribes given the Departments trust responsibilities and the California Department 3 of Fish and Game as the state level resource management agency. The 4 technical review team provided invaluable assistance in the review of methods 5 and results used in the analysis, provided comments on draft sections of the 6 report, and provided data and supporting material for use in completion of the 7 Phase II report. In addition, several agencies and private individuals provided 8 written comments on the Preliminary Draft Report, which have been addressed in 9 this report where appropriate. 10 11 This report is organized to follow the general process used to implement the 12 technical studies. It first provides important background information on the 13 historical and current conditions of the anadromous species, highlights factors 14 that have contributed to their decline, provides an overview of the Phase I study 15 process and its principal findings. The report then continues with a description of 16 the Phase II technical study process. Key sections address methods and 17 findings for each technical component such as study design, study site selection, 18 field methods, analytical approaches, summary results, and recommended 19 instream flows. 20 21 The Phase II study relied on state-of-the-art field data collection methodologies 22 and modeling of physical habitat for target species and life stages of anadromous 23 fish. The field methods were directed toward achieving a three-dimensional 24 representation of each study site that incorporated between 0.6 to over one mile 25 of river depending on the specific study site. At each study site, a spatially 26 explicit substrate and vegetation map was developed and then integrated with 27 the three-dimensional channel topography in GIS. Fieldwork also involved 28 collection of hydraulic calibration data and fish observation data. The later 29 information was used in the development of habitat suitability criteria, conceptual 30 habitat model development and implementation, and habitat model validation 31 efforts. 32 33 Hydrology in the main stem Klamath River below Iron Gate Dam was estimated 34 differently for different purposes in Phase II. For example, we used simulated 35 unimpaired inflows (i.e., no depletions) to Upper Klamath Lake routed to Iron 36 Gate Dam with no Klamath Project imposed water demands. This simulated 37 scenario represents the best available estimates of the unimpaired flows below 38 Iron Gate Dam for the purposes of this study. The remaining flow scenarios 39 included the use of Upper Klamath Lake net inflows, historical Klamath Project 40 water demands, and the USFWS Biological Opinion (2000) target Upper Klamath 41 Lake water elevations. These scenarios represent different potential operational 42 flow scenarios as points of reference to the instream flow recommendations 43 developed as part of Phase II. Differences between these simulated flow 44 scenarios required the use of different models and/or modeling assumptions. 45 The assumptions and modeling tools are described in the appropriate technical 46 sections of the report. The estimated hydrology at each study site was used in Draft - Subject to Change 1 both the physical habitat modeling and temperature simulations using the USGS 2 Systems Impact Assessment Model (SIAM) or its components. 3 4 Physical habitat modeling at each study site relied on two-dimensional hydraulic 5 simulations that were coupled to three-dimensional habitat models. The 6 analytical form of the habitat models varied for spawning, fry, and 'juveniles' (i.e., 7 pre-smolts). These modeling results were compared to available 1-dimensional 8 cross section based hydraulic and habitat modeling at study sites that overlapped 9 between existing USFWS/USGS and Phase II studies. 10 11 Habitat suitability criteria for target species and life stages of anadromous fish 12 were developed from site-specific data for Chinook spawning, Chinook fry, and 13 steelhead 1+. These curves were validated both by field observations using the 14 habitat modeling results as well as by comparison to results from an individual 15 based bioenergetics model for drift feeding salmonids developed at USU. A 16 separate procedure was developed to obtain habitat suitability curves for Chinook 17 juvenile (i.e., pre-smolts), steelhead fry, and coho fry based on available 18 literature data. This approach used a systematic process to construct an 19 'envelope' habitat suitability curve that encompassed the available literature 20 curves. The overall process included a validation component that compared the 21 habitat versus discharge relationships between envelope curves to the site- 22 specific curves for Chinook spawning, Chinook fry, and steelhead 1+. The results 23 validated the use of the envelope curves for use as interim criteria pending 24 further research and development of site-specific curves for these species and 25 life stages within the Klamath River. 26 27 Habitat modeling involved the integration of substrate and cover mapping with 28 the three-dimensional topography and hydraulic properties at each study site with 29 the habitat suitability curves. Habitat modeling was undertaken for Chinook 30 spawning, fry, and juveniles, coho fry and juveniles, and steelhead fry and 31 steelhead 1+. Different habitat models were developed for spawning, fry, and 32 juveniles. The study generated a salmonid fry habitat model that incorporated a 33 distance to escape cover that also required sufficient depth within the escape 34 cover in order for it to be utilized at a given flow rate. This model also 35 incorporated quantitative differences in the type of escape cover. 36 37 The habitat modeling results for each species and life stage were validated 38 against the spatial distribution of each species and life stage surveyed at study 39 sites at different flow rates. These results generally demonstrated that the 40 integrated habitat modeling was validated for the study in terms of spawning and 41 fry life stages. Our assessment of the pre-smolt or juvenile life stage results is 42 that they are consistent for the existing habitat model assumptions. However, we 43 discuss what we perceive to be inherent biases in these results (juveniles) based 44 on the existing habitat model structure and make specific recommendations of 45 what additional work would likely improve the results for this particular life stage. 46 Draft - Subject to Change jjj 1 Temperature simulations based on the unimpaired flow regime below Iron Gate 2 Dam were conducted with HEC5Q as part of the SIAM applications. These 3 results supported the findings in Phase I that flows lower than ~ 1000 cfs during 4 the late summer would likely increase the environmental risk to anadromous 5 species due to almost continual exposure to chronic temperature thresholds. We 6 believe that these simulation results show that there is very little flexibility for 7 reservoir operations at Iron Gate Dam to mitigate deleterious flow dependent 8 temperature effects. This finding has previously been reported by the USGS 9 (Bartholow 1995) and Deas (1999). 10 11 The integration of the habitat modeling with the unimpaired hydrology was used 12 to develop habitat reference values for target species and life stages at each 13 study reach on a monthly basis for flow exceedence ranges between 10 and 90 14 percent. The reference habitat value was computed as the percent of maximum 15 habitat associated with the unimpaired flow values for each species and life 16 stage on a monthly basis. This reference habitat value was used as one 'target' 17 condition to guide the selection of monthly flow recommendations at a given 18 exceedence flow level. 19 20 The flow recommendation process also employed a prioritization of species and 21 life stages to be considered within the year and/or within a specific month. The 22 prioritization of life stages was taken from the life history sequence of 23 anadromous species (i.e., spawning, fry, and then juveniles). The initial priority 24 order for species was defined as Chinook, then coho, and finally steelhead. It is 25 stressed that this initial prioritization was used to conceptually simplify the flow 26 recommendation process only, and that all species and life stages were 27 examined as part of the overall analysis. The process then relied on an iterative 28 procedure to select target flows for each month at a given exceedence level. 29 This procedure attempted to pick a target flow that would simultaneously 30 preserve the underlying characteristics of the seasonal unimpaired hydrograph at 31 that exceedence flow, the underlying relationship of the unimpaired hydrograph 32 between all exceedence flow levels, while striving to maximize habitat for the 33 priority species and life stages relative to the unimpaired habitat reference 34 conditions. The corresponding monthly flow rates at each exceedence level 35 were then used to compute the percent of maximum habitat for all other species 36 and life stages in a given month. These values were then compared to their 37 respective unimpaired habitat values to ensure that adequate protection of 38 habitat for non-priority species and life stages remained reasonable. 39 40 The flow recommendations developed in the Iron Gate to Shasta River Reach 41 were 'propagated' downstream to each successive reach by addition of the reach 42 gains as presently defined by the USGS in their MODSIM module of SIAM. It is 43 recognized that these reach gains reflect existing depletions in tributary systems 44 (e.g., Shasta and Scott Rivers) but are the only estimates presently available for 45 use in the simulation models for the system. The flow recommendations for each 46 river reach were then used to compute the percent of maximum habitat on a Draft - Subject to Change 1 monthly basis for each species and life stage. The recommended flow based 2 calculation of percent of maximum habitat for each species and life stage was 3 then compared against the associated unimpaired flow based habitat values. 4 5 Although flow recommendations were developed for the 10 to 90 percent 6 exceedence range (i.e., nine water year types), five water year types were 7 identified representing Critically Dry, Dry, Average, Wet, and Extremely Wet 8 inflow conditions for Upper Klamath Lake. These water year classifications 9 parallel those developed for the Trinity River and were used as operational 10 definitions in the Phase I report. Furthermore, the USBR KPSIM model was 11 modified to use this five-water year type format for simulating operations under 12 different instream flow requirements below Iron Gate Dam. The 90, 70, 50, 30, 13 and 10 percent exceedence flow levels were assigned to each of these water 14 year types, respectively (i.e., critically dry to extremely wet). This assignment 15 was used to demonstrate several key points regarding the use of 16 recommendations at this level of resolution (i.e., five water year types) and how 17 the existing operational models for the Klamath Project simulate flow scenarios. 18 19 These five water year type dependent recommendations were utilized in the U.S. 20 Bureau of Reclamation's Klamath Project Simulation Module (KPSIM) to simulate 21 project operations over the 1961 to 1997 period of record. This analysis 22 confirmed that the project could be operated to achieve these recommendations 23 in all but 19 of the 468 simulated months in this period of record. These results 24 also highlighted that an alternative water year 'classification' strategy for 25 specifying instream flows should be considered in lieu of a five water year type 26 scheme. We provide a specific recommendation of how this could be 27 approached based on the instream flow recommendations developed in Phase II. 28 29 30 Draft - Subject to Change Title: Evaluation of Interim Instream Flow Needs in the Klamath River Phase II Final Report Author: Hardy, Thomas B; Addley. R. Craig Year: 2001, 2008, 2005 1 Acknowledgements 2 3 The completion of this work in large part can be attributed to the efforts of the 4 U.S. Fish and Wildlife Service Arcata Field Office staff and in particular to Mr. 5 Thomas Shaw for providing much of the supporting site-specific field data, 6 habitat mapping, and fisheries data used in the analyses. The efforts of the 7 various Tribal fisheries personnel were critical in supplying additional fisheries 8 collection data, and intensive site substrate and cover mapping. In particular, the 9 efforts of Tim Hayden, Charlie Chamberlain and Mike Belchik. USGS personnel 10 from the Midcontinent Ecological Science Center also provided valuable 11 assistance and field data used in the cross section based hydraulic and habitat 12 modeling. Mr. Gary Smith and Mike Rode of the California Department of Fish 13 and Game also provided critical information on site-specific habitat suitability 14 criteria and conceptual foundations for the escape cover analysis used in the 15 habitat simulations. Much of this work was also supported by work of Tim 16 Harden (Harden and Associates). The Bureau of Reclamation also provided 17 valuable input during the Phase II study process on Klamath Project operations. 18 A special thanks is also given to Mr. Mike Deas (U.C. Davis) for providing water 19 temperature simulations below Iron Gate Dam. The Technical Team also 20 provided critical input and review of all technical elements of this work as well as 21 providing reviews of the report. Finally, the completion of this work would not 22 have been possible without the tireless efforts of Jennifer Ludlow, Mark 23 Winkelaar, James Shoemaker, Shannon Clemens, Jerilyn Brunson, William 24 Bradford, Sarah Blake, Brandy Blank, Matt Combes, Leon Basdekas, and Aaron 25 Hardy at the Institute for Natural Systems Engineering, Utah State University. 26 27 Executive Summary 28 29 Previous instream flow recommendations developed as part of Phase I (Hardy, 30 1999) recommended interim instream flows in the main stem Klamath River 31 based on analyses of hydrology data. At that time, site-specific data suitable for 32 analysis and evaluation using habitat based modeling were not available. This 33 report details the analytical approach and modeling results from site-specific 34 studies conducted within the main stem Klamath River below Iron Gate Dam 35 downstream to the estuary. Study results are utilized to make revised interim 36 instream flow recommendations necessary to protect the aquatic resources 37 within the main stem Klamath River between Iron Gate and the estuary. This 38 report also makes specific recommendations for future research needs as part of 39 the on-going strategic instream flow studies being undertaken by the U.S. Fish 40 and Wildlife Service and collaborating private, local, state, federal, and tribal 41 entities. 42 43 This report was developed for the Department of the Interior (DOI) who provided 44 access to a technical review team composed of representatives of the U.S. Fish 45 and Wildlife Service, Bureau of Reclamation, Bureau of Indian Affairs, U.S. 46 Geological Survey, and the National Marine Fisheries Service. The technical Draft - Subject to Change 1 review team also included participation by the Yurok, Hoopa Valley, and Karuk 2 Tribes given the Departments trust responsibilities and the California Department 3 of Fish and Game as the state level resource management agency. The 4 technical review team provided invaluable assistance in the review of methods 5 and results used in the analysis, provided comments on draft sections of the 6 report, and provided data and supporting material for use in completion of the 7 Phase II report. In addition, several agencies and private individuals provided 8 written comments on the Preliminary Draft Report, which have been addressed in 9 this report where appropriate. 10 11 This report is organized to follow the general process used to implement the 12 technical studies. It first provides important background information on the 13 historical and current conditions of the anadromous species, highlights factors 14 that have contributed to their decline, provides an overview of the Phase I study 15 process and its principal findings. The report then continues with a description of 16 the Phase II technical study process. Key sections address methods and 17 findings for each technical component such as study design, study site selection, 18 field methods, analytical approaches, summary results, and recommended 19 instream flows. 20 21 The Phase II study relied on state-of-the-art field data collection methodologies 22 and modeling of physical habitat for target species and life stages of anadromous 23 fish. The field methods were directed toward achieving a three-dimensional 24 representation of each study site that incorporated between 0.6 to over one mile 25 of river depending on the specific study site. At each study site, a spatially 26 explicit substrate and vegetation map was developed and then integrated with 27 the three-dimensional channel topography in GIS. Fieldwork also involved 28 collection of hydraulic calibration data and fish observation data. The later 29 information was used in the development of habitat suitability criteria, conceptual 30 habitat model development and implementation, and habitat model validation 31 efforts. 32 33 Hydrology in the main stem Klamath River below Iron Gate Dam was estimated 34 differently for different purposes in Phase II. For example, we used simulated 35 unimpaired inflows (i.e., no depletions) to Upper Klamath Lake routed to Iron 36 Gate Dam with no Klamath Project imposed water demands. This simulated 37 scenario represents the best available estimates of the unimpaired flows below 38 Iron Gate Dam for the purposes of this study. The remaining flow scenarios 39 included the use of Upper Klamath Lake net inflows, historical Klamath Project 40 water demands, and the USFWS Biological Opinion (2000) target Upper Klamath 41 Lake water elevations. These scenarios represent different potential operational 42 flow scenarios as points of reference to the instream flow recommendations 43 developed as part of Phase II. Differences between these simulated flow 44 scenarios required the use of different models and/or modeling assumptions. 45 The assumptions and modeling tools are described in the appropriate technical 46 sections of the report. The estimated hydrology at each study site was used in Draft - Subject to Change 1 both the physical habitat modeling and temperature simulations using the USGS 2 Systems Impact Assessment Model (SIAM) or its components. 3 4 Physical habitat modeling at each study site relied on two-dimensional hydraulic 5 simulations that were coupled to three-dimensional habitat models. The 6 analytical form of the habitat models varied for spawning, fry, and 'juveniles' (i.e., 7 pre-smolts). These modeling results were compared to available 1-dimensional 8 cross section based hydraulic and habitat modeling at study sites that overlapped 9 between existing USFWS/USGS and Phase II studies. 10 11 Habitat suitability criteria for target species and life stages of anadromous fish 12 were developed from site-specific data for Chinook spawning, Chinook fry, and 13 steelhead 1+. These curves were validated both by field observations using the 14 habitat modeling results as well as by comparison to results from an individual 15 based bioenergetics model for drift feeding salmonids developed at USU. A 16 separate procedure was developed to obtain habitat suitability curves for Chinook 17 juvenile (i.e., pre-smolts), steelhead fry, and coho fry based on available 18 literature data. This approach used a systematic process to construct an 19 'envelope' habitat suitability curve that encompassed the available literature 20 curves. The overall process included a validation component that compared the 21 habitat versus discharge relationships between envelope curves to the site- 22 specific curves for Chinook spawning, Chinook fry, and steelhead 1+. The results 23 validated the use of the envelope curves for use as interim criteria pending 24 further research and development of site-specific curves for these species and 25 life stages within the Klamath River. 26 27 Habitat modeling involved the integration of substrate and cover mapping with 28 the three-dimensional topography and hydraulic properties at each study site with 29 the habitat suitability curves. Habitat modeling was undertaken for Chinook 30 spawning, fry, and juveniles, coho fry and juveniles, and steelhead fry and 31 steelhead 1+. Different habitat models were developed for spawning, fry, and 32 juveniles. The study generated a salmonid fry habitat model that incorporated a 33 distance to escape cover that also required sufficient depth within the escape 34 cover in order for it to be utilized at a given flow rate. This model also 35 incorporated quantitative differences in the type of escape cover. 36 37 The habitat modeling results for each species and life stage were validated 38 against the spatial distribution of each species and life stage surveyed at study 39 sites at different flow rates. These results generally demonstrated that the 40 integrated habitat modeling was validated for the study in terms of spawning and 41 fry life stages. Our assessment of the pre-smolt or juvenile life stage results is 42 that they are consistent for the existing habitat model assumptions. However, we 43 discuss what we perceive to be inherent biases in these results (juveniles) based 44 on the existing habitat model structure and make specific recommendations of 45 what additional work would likely improve the results for this particular life stage. 46 Draft - Subject to Change jjj 1 Temperature simulations based on the unimpaired flow regime below Iron Gate 2 Dam were conducted with HEC5Q as part of the SIAM applications. These 3 results supported the findings in Phase I that flows lower than ~ 1000 cfs during 4 the late summer would likely increase the environmental risk to anadromous 5 species due to almost continual exposure to chronic temperature thresholds. We 6 believe that these simulation results show that there is very little flexibility for 7 reservoir operations at Iron Gate Dam to mitigate deleterious flow dependent 8 temperature effects. This finding has previously been reported by the USGS 9 (Bartholow 1995) and Deas (1999). 10 11 The integration of the habitat modeling with the unimpaired hydrology was used 12 to develop habitat reference values for target species and life stages at each 13 study reach on a monthly basis for flow exceedence ranges between 10 and 90 14 percent. The reference habitat value was computed as the percent of maximum 15 habitat associated with the unimpaired flow values for each species and life 16 stage on a monthly basis. This reference habitat value was used as one 'target' 17 condition to guide the selection of monthly flow recommendations at a given 18 exceedence flow level. 19 20 The flow recommendation process also employed a prioritization of species and 21 life stages to be considered within the year and/or within a specific month. The 22 prioritization of life stages was taken from the life history sequence of 23 anadromous species (i.e., spawning, fry, and then juveniles). The initial priority 24 order for species was defined as Chinook, then coho, and finally steelhead. It is 25 stressed that this initial prioritization was used to conceptually simplify the flow 26 recommendation process only, and that all species and life stages were 27 examined as part of the overall analysis. The process then relied on an iterative 28 procedure to select target flows for each month at a given exceedence level. 29 This procedure attempted to pick a target flow that would simultaneously 30 preserve the underlying characteristics of the seasonal unimpaired hydrograph at 31 that exceedence flow, the underlying relationship of the unimpaired hydrograph 32 between all exceedence flow levels, while striving to maximize habitat for the 33 priority species and life stages relative to the unimpaired habitat reference 34 conditions. The corresponding monthly flow rates at each exceedence level 35 were then used to compute the percent of maximum habitat for all other species 36 and life stages in a given month. These values were then compared to their 37 respective unimpaired habitat values to ensure that adequate protection of 38 habitat for non-priority species and life stages remained reasonable. 39 40 The flow recommendations developed in the Iron Gate to Shasta River Reach 41 were 'propagated' downstream to each successive reach by addition of the reach 42 gains as presently defined by the USGS in their MODSIM module of SIAM. It is 43 recognized that these reach gains reflect existing depletions in tributary systems 44 (e.g., Shasta and Scott Rivers) but are the only estimates presently available for 45 use in the simulation models for the system. The flow recommendations for each 46 river reach were then used to compute the percent of maximum habitat on a Draft - Subject to Change 1 monthly basis for each species and life stage. The recommended flow based 2 calculation of percent of maximum habitat for each species and life stage was 3 then compared against the associated unimpaired flow based habitat values. 4 5 Although flow recommendations were developed for the 10 to 90 percent 6 exceedence range (i.e., nine water year types), five water year types were 7 identified representing Critically Dry, Dry, Average, Wet, and Extremely Wet 8 inflow conditions for Upper Klamath Lake. These water year classifications 9 parallel those developed for the Trinity River and were used as operational 10 definitions in the Phase I report. Furthermore, the USBR KPSIM model was 11 modified to use this five-water year type format for simulating operations under 12 different instream flow requirements below Iron Gate Dam. The 90, 70, 50, 30, 13 and 10 percent exceedence flow levels were assigned to each of these water 14 year types, respectively (i.e., critically dry to extremely wet). This assignment 15 was used to demonstrate several key points regarding the use of 16 recommendations at this level of resolution (i.e., five water year types) and how 17 the existing operational models for the Klamath Project simulate flow scenarios. 18 19 These five water year type dependent recommendations were utilized in the U.S. 20 Bureau of Reclamation's Klamath Project Simulation Module (KPSIM) to simulate 21 project operations over the 1961 to 1997 period of record. This analysis 22 confirmed that the project could be operated to achieve these recommendations 23 in all but 19 of the 468 simulated months in this period of record. These results 24 also highlighted that an alternative water year 'classification' strategy for 25 specifying instream flows should be considered in lieu of a five water year type 26 scheme. We provide a specific recommendation of how this could be 27 approached based on the instream flow recommendations developed in Phase II. 28 29 30 Draft - Subject to Change Close

• 345. [Image] Draft resource management plan/environmental impact statement for the Upper Klamath Basin

  	"March 1994."
  	Citation × Citation Citation Abstract Copy Title: Draft resource management plan/environmental impact statement for the Upper Klamath Basin Author: United States. Bureau of Land Management. Klamath Falls Resource Area Office Year: 1994, 2005 "March 1994." Title: Draft resource management plan/environmental impact statement for the Upper Klamath Basin Author: United States. Bureau of Land Management. Klamath Falls Resource Area Office Year: 1994, 2005 "March 1994." Close

• 346. [Image] Water-quality data from 2002 to 2003 and analysis of data gaps for development of total maximum daily loads in the Lower Klamath River basin, California

  	By Lorraine E. Flint, Alan L. Flint, Debra S. Curry, Stewart A. Rounds, and Micelis C. Doyle Abstract The U.S. Geological Survey (USGS) collected water? quality data during 2002 and 2003 In ...
  	Citation × Citation Citation Abstract Copy Title: Water-quality data from 2002 to 2003 and analysis of data gaps for development of total maximum daily loads in the Lower Klamath River basin, California Author: Flint, Lorraine E.; Flint, Alan L.; Curry, Debra S.; Rounds, Stewart A.; Doyle, Micelis C. Year: 2004, 2006, 2005 By Lorraine E. Flint, Alan L. Flint, Debra S. Curry, Stewart A. Rounds, and Micelis C. Doyle Abstract The U.S. Geological Survey (USGS) collected water? quality data during 2002 and 2003 In the Lower Klamath River Basin, in northern California, to support studies of river conditions as they pertain to the viability of Chinook and Coho salmon and endangered suckers. To address the data needs of the North Coast Regional Water Quality Control Board for the development of Total Maximum Daily Loads (TMDLs), water temperature, dissolved oxygen, specific conductance, and pH were continuously monitored at sites on the Klamath, Trinity, Shasta, and Lost Rivers. Water-quality samples were collected and analyzed for selected nutrients, organic carbon, chlorophyll-a, pheophytin-a, and trace elements. Sediment oxygen demand was measured on the Shasta River. Results of analysis of the data collected were used to identify locations in the Lower Klamath River Basin and periods of time during 200 Title: Water-quality data from 2002 to 2003 and analysis of data gaps for development of total maximum daily loads in the Lower Klamath River basin, California Author: Flint, Lorraine E.; Flint, Alan L.; Curry, Debra S.; Rounds, Stewart A.; Doyle, Micelis C. Year: 2004, 2006, 2005 By Lorraine E. Flint, Alan L. Flint, Debra S. Curry, Stewart A. Rounds, and Micelis C. Doyle Abstract The U.S. Geological Survey (USGS) collected water? quality data during 2002 and 2003 In the Lower Klamath River Basin, in northern California, to support studies of river conditions as they pertain to the viability of Chinook and Coho salmon and endangered suckers. To address the data needs of the North Coast Regional Water Quality Control Board for the development of Total Maximum Daily Loads (TMDLs), water temperature, dissolved oxygen, specific conductance, and pH were continuously monitored at sites on the Klamath, Trinity, Shasta, and Lost Rivers. Water-quality samples were collected and analyzed for selected nutrients, organic carbon, chlorophyll-a, pheophytin-a, and trace elements. Sediment oxygen demand was measured on the Shasta River. Results of analysis of the data collected were used to identify locations in the Lower Klamath River Basin and periods of time during 200 Close

• 347. [Image] Federal Register - Policy for Evaluation of Conservation Efforts When Making Listing Decisions

  	We, the Fish and Wildlife Service (FWS) and the National Marine Fisheries Service (NMFS) (the Services), announce a final policy for the evaluation of conservation efforts when making listing decisions ...
  	Citation × Citation Citation Abstract Copy Title: Federal Register - Policy for Evaluation of Conservation Efforts When Making Listing Decisions Year: 2003, 2008, 2005 We, the Fish and Wildlife Service (FWS) and the National Marine Fisheries Service (NMFS) (the Services), announce a final policy for the evaluation of conservation efforts when making listing decisions (PECE) under the Endangered Species Act of 1973, as amended (Act). While the Act requires us to take into account all conservation efforts being made to protect a species, the policy identifies criteria we will use in determining whether formalized conservation efforts that have yet to be implemented or to show effectiveness contribute to making listing a species as threatened or endangered unnecessary. The policy applies to conservation efforts identified in conservation agreements, conservation plans, management plans, or similar documents developed by Federal agencies, State and local governments, Tribal governments, businesses, organizations, and individuals Title: Federal Register - Policy for Evaluation of Conservation Efforts When Making Listing Decisions Year: 2003, 2008, 2005 We, the Fish and Wildlife Service (FWS) and the National Marine Fisheries Service (NMFS) (the Services), announce a final policy for the evaluation of conservation efforts when making listing decisions (PECE) under the Endangered Species Act of 1973, as amended (Act). While the Act requires us to take into account all conservation efforts being made to protect a species, the policy identifies criteria we will use in determining whether formalized conservation efforts that have yet to be implemented or to show effectiveness contribute to making listing a species as threatened or endangered unnecessary. The policy applies to conservation efforts identified in conservation agreements, conservation plans, management plans, or similar documents developed by Federal agencies, State and local governments, Tribal governments, businesses, organizations, and individuals Close

• 348. [Image] Water resources data. Oregon. Water Year 2002

  	PREFACEThe annual Oregon hydrologic data report is one of a series of annual reports that document hydrologic data gathered from the U.S. Geological Survey's surface- and ground-water data-collection networks ...
  	Citation × Citation Citation Abstract Copy Title: Water resources data. Oregon. Water Year 2002 Author: Geological Survey (U.S.). Water Resources Division Year: 2002, 2004 PREFACEThe annual Oregon hydrologic data report is one of a series of annual reports that document hydrologic data gathered from the U.S. Geological Survey's surface- and ground-water data-collection networks in each State, Puerto Rico, and the Trust Territories. These records of streamflow, ground-water levels, and quality of water provide the hydrologic information needed by State, local and Federal agencies, and the private sector for developing and managing our Nation's land and water resources.The report is the culmination of a concerted effort by dedicated personnel of the U.S. Geological Survey who collected, compiled, analyzed, verified, and organized the data, and who edited and assembled the reports. In addition to the authors, who had primary responsibility for assuring that the information contained herein is accurate, complete, and adheres to Geological Survey policy and established guidelines, the following individuals contributed significantly to the collection, processing, and tabulation of the data: Title: Water resources data. Oregon. Water Year 2002 Author: Geological Survey (U.S.). Water Resources Division Year: 2002, 2004 PREFACEThe annual Oregon hydrologic data report is one of a series of annual reports that document hydrologic data gathered from the U.S. Geological Survey's surface- and ground-water data-collection networks in each State, Puerto Rico, and the Trust Territories. These records of streamflow, ground-water levels, and quality of water provide the hydrologic information needed by State, local and Federal agencies, and the private sector for developing and managing our Nation's land and water resources.The report is the culmination of a concerted effort by dedicated personnel of the U.S. Geological Survey who collected, compiled, analyzed, verified, and organized the data, and who edited and assembled the reports. In addition to the authors, who had primary responsibility for assuring that the information contained herein is accurate, complete, and adheres to Geological Survey policy and established guidelines, the following individuals contributed significantly to the collection, processing, and tabulation of the data: Close

• 349. [Image] Proceedings of the Klamath Basin Fish & Water Management Symposium

  	ABSTRACT Two facilitated discussions were held with participants during the last two days of the Klamath Basin Fish and Water Symposium with the goal of proposing next steps that could be taken to resolve ...
  	Citation × Citation Citation Abstract Copy Title: Proceedings of the Klamath Basin Fish & Water Management Symposium Author: Klamath River Inter-Tribal Fish & Water Commission. ; Humboldt State University. Year: 2002, 2008, 2005 ABSTRACT Two facilitated discussions were held with participants during the last two days of the Klamath Basin Fish and Water Symposium with the goal of proposing next steps that could be taken to resolve the issues regarding water use and restoration in the basin. This paper is a compilation of the results from the facilitated sessions. Title: Proceedings of the Klamath Basin Fish & Water Management Symposium Author: Klamath River Inter-Tribal Fish & Water Commission. ; Humboldt State University. Year: 2002, 2008, 2005 ABSTRACT Two facilitated discussions were held with participants during the last two days of the Klamath Basin Fish and Water Symposium with the goal of proposing next steps that could be taken to resolve the issues regarding water use and restoration in the basin. This paper is a compilation of the results from the facilitated sessions. Close