Search

Search Results

• 711. [Image] Final progress report for fisheries investigations on Blue Creek, tributary to Klamath River, northern California, FY 1993

  	FINAL PROGRESS REPORT FOR FISHERIES INVESTIGATIONS ON BLUE CREEK, TRIBUTARY TO K1AMATH RIVER, NORTHERN CALIFORNIA FY 1993 (October 1992 - September 1993) ABSTRACT The U.S. Fish and Wildlife Service, ...
  	Citation × Citation Citation Abstract Copy Title: Final progress report for fisheries investigations on Blue Creek, tributary to Klamath River, northern California, FY 1993 Author: Longenbaugh, Matthew H.; Chan, Jeffrey R. Year: 1994, 2008, 2005 FINAL PROGRESS REPORT FOR FISHERIES INVESTIGATIONS ON BLUE CREEK, TRIBUTARY TO K1AMATH RIVER, NORTHERN CALIFORNIA FY 1993 (October 1992 - September 1993) ABSTRACT The U.S. Fish and Wildlife Service, Coastal California Fishery Resource Office (CCFRO) in Arcata, CA, was funded to investigate chinook salmon spawning use, juvenile salmonid emigration and characterize habitats in Blue Creek, Klamath Basin, CA. Investigations that began in October, 1988, have continued to date, with this reporting period covering Fiscal Year 1993 (FY 1993, October, 1992, through September, 1993). In addition, some information already presented in previous progress reports, FY 1989 - FY 1992, is summarized. In 1993, adult chinook spawner escapements were addressed by snorkel surveys of redds and carcasses. Spawner numbers were very low, with only 17 redds observed in fall/winter 1992-93. The peak count of adult chinook was 136 fish in early November. Emigrating juvenile s&lmonids were trapped at river kilometer (rkm) 3.35 with a screw trap and panel weir. The screw trapping period extended from April through July for a total of 91 trapping nights. Screw trap catches totaled 14,526 chinook, 912 steelhead and 69 coho. Chinook emigration was spread over the entire trapping period, with increases during mid-May, and from mid-June throughout July. A juvenile weir was operated 60 nights, and caught a total of 6,334 chinook, 992 steelhead, 49 coho salmon, and 0 juvenile cutthroat. The total index of production for emigrating chinook during the 1993 juvenile trapping period was 101,819. Chinook that were marked with coded-wire tags (n-12,299) were released, with other juvenile fish, into Blue Creek at rkm 3.3. Mean temperatures varied from 6.3 to 18.6 ?C and flows ranged from 0.91 cubic m/s (32 cubic feet/s) to 202.6 cubic m/s (7,160 cubic feet/s) during FY 1993. Extreme flows for FY 1993 were the lowest and highest observed by CCFRO since the project began in 1989, and lower than the previous low of the 13 years of record. Title: Final progress report for fisheries investigations on Blue Creek, tributary to Klamath River, northern California, FY 1993 Author: Longenbaugh, Matthew H.; Chan, Jeffrey R. Year: 1994, 2008, 2005 FINAL PROGRESS REPORT FOR FISHERIES INVESTIGATIONS ON BLUE CREEK, TRIBUTARY TO K1AMATH RIVER, NORTHERN CALIFORNIA FY 1993 (October 1992 - September 1993) ABSTRACT The U.S. Fish and Wildlife Service, Coastal California Fishery Resource Office (CCFRO) in Arcata, CA, was funded to investigate chinook salmon spawning use, juvenile salmonid emigration and characterize habitats in Blue Creek, Klamath Basin, CA. Investigations that began in October, 1988, have continued to date, with this reporting period covering Fiscal Year 1993 (FY 1993, October, 1992, through September, 1993). In addition, some information already presented in previous progress reports, FY 1989 - FY 1992, is summarized. In 1993, adult chinook spawner escapements were addressed by snorkel surveys of redds and carcasses. Spawner numbers were very low, with only 17 redds observed in fall/winter 1992-93. The peak count of adult chinook was 136 fish in early November. Emigrating juvenile s&lmonids were trapped at river kilometer (rkm) 3.35 with a screw trap and panel weir. The screw trapping period extended from April through July for a total of 91 trapping nights. Screw trap catches totaled 14,526 chinook, 912 steelhead and 69 coho. Chinook emigration was spread over the entire trapping period, with increases during mid-May, and from mid-June throughout July. A juvenile weir was operated 60 nights, and caught a total of 6,334 chinook, 992 steelhead, 49 coho salmon, and 0 juvenile cutthroat. The total index of production for emigrating chinook during the 1993 juvenile trapping period was 101,819. Chinook that were marked with coded-wire tags (n-12,299) were released, with other juvenile fish, into Blue Creek at rkm 3.3. Mean temperatures varied from 6.3 to 18.6 ?C and flows ranged from 0.91 cubic m/s (32 cubic feet/s) to 202.6 cubic m/s (7,160 cubic feet/s) during FY 1993. Extreme flows for FY 1993 were the lowest and highest observed by CCFRO since the project began in 1989, and lower than the previous low of the 13 years of record. Close

• 712. [Image] Progress report for investigations on Blue Creek, fiscal year 1992, Blue Creek, California

  	PROGRESS REPORT FOR INVESTIGATIONS ON BLUE CREEK FT 1992 ABSTRACT The U.S. Fish and Wildlife Service, Coastal California Fishery Resource Office in Arcata, California, was funded to investigate chinook ...
  	Citation × Citation Citation Abstract Copy Title: Progress report for investigations on Blue Creek, fiscal year 1992, Blue Creek, California Author: Chan, Jeffrey R. ; Longenbaugh, Matthew H. Year: 1994, 2005 PROGRESS REPORT FOR INVESTIGATIONS ON BLUE CREEK FT 1992 ABSTRACT The U.S. Fish and Wildlife Service, Coastal California Fishery Resource Office in Arcata, California, was funded to investigate chinook salmon roncorhvnchus tshawvtschav spavming use, juvenile salmonid emigration, and characterize stream habitats in Blue Creek, a tributary to' the Klamath River; California. Investigations began in October 1988, with this reporting period covering October 1991 through September 1992. Adult chinook spawner escapement was addressed by surveys of redds, live fish and carcasses, and by radioteleiretry. Spawner numbers were v?ry low, with only 22 redds observed in fall 1991/winter 1992. The peak count of adult Chinook was 97 fish in early November. Radiotelemetry of migrating spawners (n?8) was used to locate remote spawning areas. Emigrating juvenile Chinook salmon, steelhead trout 10. mvkissV/ coho salmon (fi. kisutchl. and coastal cutthroat trout (g. clarltiV were trapped at river kilometer (rkm) 3.35 with a rotary screw trap (screw trap). The trapping period extended from April to July for a total of 75 trapping nights. Screw trap catches totaled 10,688 chinook, 1,388 steelhead, 99 coho and 10 cutthroat. Peak Chinook emigration occurred during the week of May 17, which is consistent with the past 3 years of monitoring. A juvenile weir was operated 58 nights, and caught a total of 9,166 chinook, 1,196 steelhead, 127 coho and 1 cutthroat. The index of abundance for emigrating chinook during the 1992 juvenile trapping period was 49,590. Sixty-five percent of the juvenile chinook caught during the trapping season were marked with coded wire tags (n-12,687) and released back into Blue Creek at rkm 3.3. Mean water temperatures varied from 6.3 to 18.6 XI and stream flows ranged from 43 to 2178 eft (1.3 to 61.7 m3/?) during the Fiscal Year (FY) 1992 study season. Title: Progress report for investigations on Blue Creek, fiscal year 1992, Blue Creek, California Author: Chan, Jeffrey R. ; Longenbaugh, Matthew H. Year: 1994, 2005 PROGRESS REPORT FOR INVESTIGATIONS ON BLUE CREEK FT 1992 ABSTRACT The U.S. Fish and Wildlife Service, Coastal California Fishery Resource Office in Arcata, California, was funded to investigate chinook salmon roncorhvnchus tshawvtschav spavming use, juvenile salmonid emigration, and characterize stream habitats in Blue Creek, a tributary to' the Klamath River; California. Investigations began in October 1988, with this reporting period covering October 1991 through September 1992. Adult chinook spawner escapement was addressed by surveys of redds, live fish and carcasses, and by radioteleiretry. Spawner numbers were v?ry low, with only 22 redds observed in fall 1991/winter 1992. The peak count of adult Chinook was 97 fish in early November. Radiotelemetry of migrating spawners (n?8) was used to locate remote spawning areas. Emigrating juvenile Chinook salmon, steelhead trout 10. mvkissV/ coho salmon (fi. kisutchl. and coastal cutthroat trout (g. clarltiV were trapped at river kilometer (rkm) 3.35 with a rotary screw trap (screw trap). The trapping period extended from April to July for a total of 75 trapping nights. Screw trap catches totaled 10,688 chinook, 1,388 steelhead, 99 coho and 10 cutthroat. Peak Chinook emigration occurred during the week of May 17, which is consistent with the past 3 years of monitoring. A juvenile weir was operated 58 nights, and caught a total of 9,166 chinook, 1,196 steelhead, 127 coho and 1 cutthroat. The index of abundance for emigrating chinook during the 1992 juvenile trapping period was 49,590. Sixty-five percent of the juvenile chinook caught during the trapping season were marked with coded wire tags (n-12,687) and released back into Blue Creek at rkm 3.3. Mean water temperatures varied from 6.3 to 18.6 XI and stream flows ranged from 43 to 2178 eft (1.3 to 61.7 m3/?) during the Fiscal Year (FY) 1992 study season. Close

• 713. [Image] Reproductive biology and demographics of endangered Lost River and shortnose suckers in Upper Klamath Lake, Oregon

  	We analyzed the reproductive biology and demographics of the Lost River sucker Deltistes luxatus and shortnose sucker Chasmistes brevirostris, two endangered species endemic to the upper Klamath Basin ...
  	Citation × Citation Citation Abstract Copy Title: Reproductive biology and demographics of endangered Lost River and shortnose suckers in Upper Klamath Lake, Oregon Author: Perkins, David L.; Scoppettone, Gary; Buettner, Mark Year: 2000, 2005 We analyzed the reproductive biology and demographics of the Lost River sucker Deltistes luxatus and shortnose sucker Chasmistes brevirostris, two endangered species endemic to the upper Klamath Basin of Oregon and California, from 1984-1997. Lost River suckers had distinct river and lake shoreline spawning stocks, and individuals of both species commonly spawned in consecutive years. In the Williamson River and lower Sprague River, spawning migration by both species occurred mainly during a 5-week period that started within the first three weeks of April and peaked between mid April and early May, although a separate, earlier (mid March) run of Lost River suckers may also spawn in the upper Sprague River. Migration of both species was several times higher at dawn (0500-0730 h) and evening (1800-2200 h) than other times of the day. Peak migrations almost always corresponded to peaks in water temperature, usually at 10-15°C. Lost River suckers were captured at springs along the east shore of the lake from late February through mid May, with peak spawning usually in mid March to mid April. Shortnose suckers were generally captured at the springs from late March through late May, but the time of peak spawning was not determined. Size and age at maturity was determined by recruitment from a strong year class (1991). Male Lost River suckers began recruitment into the adult population at age 4+ (375-475 mm). Substantial recruitment of females did not begin until age 7+ (510-560 mm). Male and female shortnose suckers began recruitment at age 4+, with the majority offish recruited by age 5+. Males recruited at 270-370 mm; females recruited at 325-425 mm. Fecundity estimates were quite variable ranging from 44,000-236,000 eggs per female Lost River sucker and 18,000-72,000 eggs per female shortnose sucker. In 1984 and 1985, the spawning populations of both species were dominated by large, old individuals, with little indication of recent adult recruitment. In the next 13 years, only one strong year class (1991) recruited into the spawning populations of both species. This year class temporarily boosted population numbers, but annual fish kills from 1995 to 1997 eliminated most adults of both species. Associated with poor water quality caused by the proliferation and decay of blue-green algae Aphanizomenonflos-aquae, these fish kills raise concern that alterations to the lake ecosystem over the past several decades have Perkins et al. Lost River and shortnose suckers 5 increased the magnitude and frequency of poor water quality. As a result, mortality rates of all life stages may have increased, thereby disrupting the species' life history pattern and potentially decreasing long-term population viability. Introduction The Lost River sucker Deltistes luxatus and shortnose sucker Chasmistes brevirostris are large, long-lived suckers endemic to the upper Klamath Basin of Oregon and California. Both species are typically lake dwelling but migrate to tributaries or shoreline springs to spawn (Moyle 1976, Scoppettone and Vinyard 1991). Once extremely abundant (Cope 1884, Gilbert 1898), both species have experienced severe population declines and were federally listed as endangered in 1988 (USFWS 1988). Much of the original habitat of these suckers has been destroyed or altered by conversion of lake areas to agriculture, dams, instream flow diversions, and water quality problems associated with timber harvest, loss of riparian vegetation, livestock grazing, and agricultural practices (USFWS 1988). Knowledge of the life history of Lost River and shortnose suckers is fundamental to recovery of these species. The objective of this report was to present the results of studies conducted from 1987-1998 on the reproductive biology and demographics of Lost River and shortnose suckers, and to compare these results with earlier unpublished data. Study Sites Studies were conducted on Upper Klamath Lake and the lower Williamson-Sprague river system (Figure 1). These waters form the upper portion of the Klamath River Basin in south-central Oregon and represent most remaining native habitat of Lost River and shortnose suckers. Upper Klamath Lake is a remnant of pluvial Lake Modoc that included eight major basins and encompassed 2,839 km2 (Dicken 1980). Today, Upper Klamath Lake serves as a storage reservoir that provides water for agricultural irrigation, waterfowl refuges, instream flow requirements of anadromous fish, and hydroelectric power generation. At full capacity, the lake covers approximately 360 km2 and has an average depth of 2.4 m. Most deeper water (3-12 m) is restricted to narrow trenches along the western shore. Lake elevation is controlled at the outlet by Link River Title: Reproductive biology and demographics of endangered Lost River and shortnose suckers in Upper Klamath Lake, Oregon Author: Perkins, David L.; Scoppettone, Gary; Buettner, Mark Year: 2000, 2005 We analyzed the reproductive biology and demographics of the Lost River sucker Deltistes luxatus and shortnose sucker Chasmistes brevirostris, two endangered species endemic to the upper Klamath Basin of Oregon and California, from 1984-1997. Lost River suckers had distinct river and lake shoreline spawning stocks, and individuals of both species commonly spawned in consecutive years. In the Williamson River and lower Sprague River, spawning migration by both species occurred mainly during a 5-week period that started within the first three weeks of April and peaked between mid April and early May, although a separate, earlier (mid March) run of Lost River suckers may also spawn in the upper Sprague River. Migration of both species was several times higher at dawn (0500-0730 h) and evening (1800-2200 h) than other times of the day. Peak migrations almost always corresponded to peaks in water temperature, usually at 10-15°C. Lost River suckers were captured at springs along the east shore of the lake from late February through mid May, with peak spawning usually in mid March to mid April. Shortnose suckers were generally captured at the springs from late March through late May, but the time of peak spawning was not determined. Size and age at maturity was determined by recruitment from a strong year class (1991). Male Lost River suckers began recruitment into the adult population at age 4+ (375-475 mm). Substantial recruitment of females did not begin until age 7+ (510-560 mm). Male and female shortnose suckers began recruitment at age 4+, with the majority offish recruited by age 5+. Males recruited at 270-370 mm; females recruited at 325-425 mm. Fecundity estimates were quite variable ranging from 44,000-236,000 eggs per female Lost River sucker and 18,000-72,000 eggs per female shortnose sucker. In 1984 and 1985, the spawning populations of both species were dominated by large, old individuals, with little indication of recent adult recruitment. In the next 13 years, only one strong year class (1991) recruited into the spawning populations of both species. This year class temporarily boosted population numbers, but annual fish kills from 1995 to 1997 eliminated most adults of both species. Associated with poor water quality caused by the proliferation and decay of blue-green algae Aphanizomenonflos-aquae, these fish kills raise concern that alterations to the lake ecosystem over the past several decades have Perkins et al. Lost River and shortnose suckers 5 increased the magnitude and frequency of poor water quality. As a result, mortality rates of all life stages may have increased, thereby disrupting the species' life history pattern and potentially decreasing long-term population viability. Introduction The Lost River sucker Deltistes luxatus and shortnose sucker Chasmistes brevirostris are large, long-lived suckers endemic to the upper Klamath Basin of Oregon and California. Both species are typically lake dwelling but migrate to tributaries or shoreline springs to spawn (Moyle 1976, Scoppettone and Vinyard 1991). Once extremely abundant (Cope 1884, Gilbert 1898), both species have experienced severe population declines and were federally listed as endangered in 1988 (USFWS 1988). Much of the original habitat of these suckers has been destroyed or altered by conversion of lake areas to agriculture, dams, instream flow diversions, and water quality problems associated with timber harvest, loss of riparian vegetation, livestock grazing, and agricultural practices (USFWS 1988). Knowledge of the life history of Lost River and shortnose suckers is fundamental to recovery of these species. The objective of this report was to present the results of studies conducted from 1987-1998 on the reproductive biology and demographics of Lost River and shortnose suckers, and to compare these results with earlier unpublished data. Study Sites Studies were conducted on Upper Klamath Lake and the lower Williamson-Sprague river system (Figure 1). These waters form the upper portion of the Klamath River Basin in south-central Oregon and represent most remaining native habitat of Lost River and shortnose suckers. Upper Klamath Lake is a remnant of pluvial Lake Modoc that included eight major basins and encompassed 2,839 km2 (Dicken 1980). Today, Upper Klamath Lake serves as a storage reservoir that provides water for agricultural irrigation, waterfowl refuges, instream flow requirements of anadromous fish, and hydroelectric power generation. At full capacity, the lake covers approximately 360 km2 and has an average depth of 2.4 m. Most deeper water (3-12 m) is restricted to narrow trenches along the western shore. Lake elevation is controlled at the outlet by Link River Close

• 714. [Image] Influences of human activity on stream temperatures and existence of cold-water fish in streams with elevated temperature: report of a workshop: Independent Multidisciplinary Science Team, Corvallis, OR, October 5-6, 2000

  	Executive Summary The Independent Multidisciplinary Science Team (IMST) convened a panel of experts on stream temperature and fish ecology on October 5-6, 2000 for a scientific workshop on human influences ...
  	Citation × Citation Citation Abstract Copy Title: Influences of human activity on stream temperatures and existence of cold-water fish in streams with elevated temperature: report of a workshop: Independent Multidisciplinary Science Team, Corvallis, OR, October 5-6, 2000 Author: Independent Multidisciplinary Science Team (Oregon) Year: 2000, 2008, 2005 Executive Summary The Independent Multidisciplinary Science Team (IMST) convened a panel of experts on stream temperature and fish ecology on October 5-6, 2000 for a scientific workshop on human influences on stream temperature and responses by salmonids. The workshop was designed to review and discuss scientifically credible data and publications about 1) factors related to human activity that influence stream temperature and 2) behavioral, physical, and ecological mechanisms of cold water fish species for existing in streams with elevated temperatures. The goal of the workshop was to review empirical evidence and to identify points of agreement, disagreement, and knowledge gaps within the scientific community concerning the factors that influence stream temperature and fish responses to elevated temperatures. This information will assist the IMST in preparing a broader temperature report on Oregon's stream temperature water quality standards and their implementation. This report is prepared by the IMST. It was reviewed by workshop participants and revised by the IMST accordingly. The report includes abstracts of plenary presentations on factors that influence stream temperatures and fish responses, and the results of group discussions. The workshop participants focused on three main questions and were asked to list statements of agreement and disagreement, and to identify gaps in the scientific knowledge related to each question: ? How and where does riparian vegetation influence stream temperature? ? Do other changes in streams cause increases in stream temperature? ? How can apparently healthy fish populations exist in streams with temperatures higher than laboratory and field studies would indicate as healthy? The workshop participants provided answers to the questions in the form of bullets. The answers below represent the IMST's summation of the workshop findings and were reviewed by the participants. Several gaps in the scientific basis for specific questions or relationships were identified. The participants found no areas of disagreement for which technical information was available. They noted that any disagreements were not related to scientific interpretation, but were based on concerns or opinions about application, regulation, and management. How and where does riparian vegetation influence stream temperature? The influence of riparian vegetation on stream temperature is cumulative and complex, varying by site, over time, and across regions. Riparian vegetation can directly affect stream temperature by intercepting solar radiation and reducing stream heating. The influence of riparian shade in controlling temperature declines as streams widen in downstream reaches, but the role of riparian vegetation in providing water quality and fish habitat benefits continues to be important. Besides providing shade, riparian vegetation can also indirectly affect stream temperature by influencing microclimate, affecting channel morphology, affecting stream flow, influencing wind speed, affecting humidity, affecting soil temperature, using water, influencing air temperature, enhancing infiltration, and influencing thermal radiation. It is critical to know the site potential to understand what vegetation a site can support. There is not a good scientific understanding of how much vegetation shading is required to affect stream temperature. 1 This lack of understanding may be due to the spatial and temporal variability in landscape components, and the resulting variability in both the direct and indirect influences of vegetation on stream temperature. Therefore, it is difficult to generalize about the effects of vegetation on stream temperature. Do other changes in streams cause increases in stream temperature? The answer to this question is yes, other physical changes in the stream system can modify stream temperatures. Stream temperature is a product of complex interactions between geomorphology, soil, hydrology, vegetation, and climate within a watershed. Changes in these factors will result in changes in stream temperature. Human activities influence stream temperature by affecting one or more of four major components: riparian vegetation, channel morphology, hydrology, and surface/subsurface interactions. Stream systems vary substantially across the landscape, and site-specific information is critical to understanding stream temperature responses to human activities. How can apparently healthy fish populations exist in streams with temperatures higher than laboratory and field studies would indicate as healthy? Workshop participants identified several mechanisms that might explain the ability of fish populations to exist at higher than expected temperatures. The first mechanism was that the fish may have physiological adaptations to survive exposures to high temperatures. A second possibility was that stream habitats may contain cooler microhabitats that fish can occupy as refuge from higher temperatures. A third consideration is that ecological interactions may be different under differing thermal conditions resulting, for example, in changes in disease virulence or cumulative effects of stressors. Finally, since substantial differences exist between laboratory and field studies, it is difficult to apply results of laboratory studies to fish responses in the field. It is important to note that these proposed mechanisms are speculative and, as the list of gaps indicates, substantial experimental work is required to establish their influences on fish in different stream systems. Workshop Summaiy Workshop participants recognized gaps in the available science. Additional knowledge about human influences on stream temperatures and, consequently, influences on cold-water fish populations, will improve our ability to prevent further degradation of stream habitat and will enhance efforts geared towards the recovery of depressed fish populations. Even with these gaps, there was enough agreement on factors that influence stream temperature to indicate information is available to start developing and implementing management practices that are designed to reduce stream warming. It was suggested that managers should consider riparian vegetation, channel morphology, and hydrology, and should account for site differences. Title: Influences of human activity on stream temperatures and existence of cold-water fish in streams with elevated temperature: report of a workshop: Independent Multidisciplinary Science Team, Corvallis, OR, October 5-6, 2000 Author: Independent Multidisciplinary Science Team (Oregon) Year: 2000, 2008, 2005 Executive Summary The Independent Multidisciplinary Science Team (IMST) convened a panel of experts on stream temperature and fish ecology on October 5-6, 2000 for a scientific workshop on human influences on stream temperature and responses by salmonids. The workshop was designed to review and discuss scientifically credible data and publications about 1) factors related to human activity that influence stream temperature and 2) behavioral, physical, and ecological mechanisms of cold water fish species for existing in streams with elevated temperatures. The goal of the workshop was to review empirical evidence and to identify points of agreement, disagreement, and knowledge gaps within the scientific community concerning the factors that influence stream temperature and fish responses to elevated temperatures. This information will assist the IMST in preparing a broader temperature report on Oregon's stream temperature water quality standards and their implementation. This report is prepared by the IMST. It was reviewed by workshop participants and revised by the IMST accordingly. The report includes abstracts of plenary presentations on factors that influence stream temperatures and fish responses, and the results of group discussions. The workshop participants focused on three main questions and were asked to list statements of agreement and disagreement, and to identify gaps in the scientific knowledge related to each question: ? How and where does riparian vegetation influence stream temperature? ? Do other changes in streams cause increases in stream temperature? ? How can apparently healthy fish populations exist in streams with temperatures higher than laboratory and field studies would indicate as healthy? The workshop participants provided answers to the questions in the form of bullets. The answers below represent the IMST's summation of the workshop findings and were reviewed by the participants. Several gaps in the scientific basis for specific questions or relationships were identified. The participants found no areas of disagreement for which technical information was available. They noted that any disagreements were not related to scientific interpretation, but were based on concerns or opinions about application, regulation, and management. How and where does riparian vegetation influence stream temperature? The influence of riparian vegetation on stream temperature is cumulative and complex, varying by site, over time, and across regions. Riparian vegetation can directly affect stream temperature by intercepting solar radiation and reducing stream heating. The influence of riparian shade in controlling temperature declines as streams widen in downstream reaches, but the role of riparian vegetation in providing water quality and fish habitat benefits continues to be important. Besides providing shade, riparian vegetation can also indirectly affect stream temperature by influencing microclimate, affecting channel morphology, affecting stream flow, influencing wind speed, affecting humidity, affecting soil temperature, using water, influencing air temperature, enhancing infiltration, and influencing thermal radiation. It is critical to know the site potential to understand what vegetation a site can support. There is not a good scientific understanding of how much vegetation shading is required to affect stream temperature. 1 This lack of understanding may be due to the spatial and temporal variability in landscape components, and the resulting variability in both the direct and indirect influences of vegetation on stream temperature. Therefore, it is difficult to generalize about the effects of vegetation on stream temperature. Do other changes in streams cause increases in stream temperature? The answer to this question is yes, other physical changes in the stream system can modify stream temperatures. Stream temperature is a product of complex interactions between geomorphology, soil, hydrology, vegetation, and climate within a watershed. Changes in these factors will result in changes in stream temperature. Human activities influence stream temperature by affecting one or more of four major components: riparian vegetation, channel morphology, hydrology, and surface/subsurface interactions. Stream systems vary substantially across the landscape, and site-specific information is critical to understanding stream temperature responses to human activities. How can apparently healthy fish populations exist in streams with temperatures higher than laboratory and field studies would indicate as healthy? Workshop participants identified several mechanisms that might explain the ability of fish populations to exist at higher than expected temperatures. The first mechanism was that the fish may have physiological adaptations to survive exposures to high temperatures. A second possibility was that stream habitats may contain cooler microhabitats that fish can occupy as refuge from higher temperatures. A third consideration is that ecological interactions may be different under differing thermal conditions resulting, for example, in changes in disease virulence or cumulative effects of stressors. Finally, since substantial differences exist between laboratory and field studies, it is difficult to apply results of laboratory studies to fish responses in the field. It is important to note that these proposed mechanisms are speculative and, as the list of gaps indicates, substantial experimental work is required to establish their influences on fish in different stream systems. Workshop Summaiy Workshop participants recognized gaps in the available science. Additional knowledge about human influences on stream temperatures and, consequently, influences on cold-water fish populations, will improve our ability to prevent further degradation of stream habitat and will enhance efforts geared towards the recovery of depressed fish populations. Even with these gaps, there was enough agreement on factors that influence stream temperature to indicate information is available to start developing and implementing management practices that are designed to reduce stream warming. It was suggested that managers should consider riparian vegetation, channel morphology, and hydrology, and should account for site differences. Close

• 715. [Image] Williamson River delta restoration project : environmental assessment

  	"May 2000"; From cover: Prepared for U.S. Department of Agriculture/Natural Resources Conservation Service, 2316 South 6th Street, Suite C, Klamath Falls, Oregon 97601. In Partnership with The Nature Conservancy, ...
  	Citation × Citation Citation Abstract Copy Title: Williamson River delta restoration project : environmental assessment Year: 2000, 2005 "May 2000"; From cover: Prepared for U.S. Department of Agriculture/Natural Resources Conservation Service, 2316 South 6th Street, Suite C, Klamath Falls, Oregon 97601. In Partnership with The Nature Conservancy, 821 SE 14th Avenue, Portland, Oregon 97214 and US Fish and Wildlife Service, US Bureau of Reclamation, Klamath Tribes, PacifiCorp, Cell Tech International; Includes bibliographic references (p. 60-66) Title: Williamson River delta restoration project : environmental assessment Year: 2000, 2005 "May 2000"; From cover: Prepared for U.S. Department of Agriculture/Natural Resources Conservation Service, 2316 South 6th Street, Suite C, Klamath Falls, Oregon 97601. In Partnership with The Nature Conservancy, 821 SE 14th Avenue, Portland, Oregon 97214 and US Fish and Wildlife Service, US Bureau of Reclamation, Klamath Tribes, PacifiCorp, Cell Tech International; Includes bibliographic references (p. 60-66) Close

• 716. [Image] Oregon lampreys : natural history, status, and analysis of management issues

  	Executive Summary The jawless lampreys are remnants of the oldest vertebrates in the world. Oregon has somewhere between eight and a dozen species of these primitive fishes. Their taxonomy is obscure ...
  	Citation × Citation Citation Abstract Copy Title: Oregon lampreys : natural history, status, and analysis of management issues Author: Kostow, Kathryn Year: 2002, 2008, 2005 Executive Summary The jawless lampreys are remnants of the oldest vertebrates in the world. Oregon has somewhere between eight and a dozen species of these primitive fishes. Their taxonomy is obscure because different species tend to look very similar through most of their life cycle, and they have not been well-studied in Oregon. Lampreys occur in the Columbia Basin, including the lower Snake River, along the Oregon coast, in the upper Klamath Basin, and in Goose Lake Basin in southeastern Oregon. They all begin life in fresh water where juveniles burrow into silt and filter feed on algae. As some species approach adulthood they migrate to the ocean or to lakes where they briefly become ecto-parasites, feeding on other live fishes by attaching to them with sucker disc mouths. Other species remain non-parasitic. In addition to some enigmatic species identities, we generally have very little information about the detailed distributions, life histories and basic biology of lampreys. Lampreys became a conservation concern in the early 1990s when tribal co-managers and some Oregon Department of Fish and Wildlife (ODFW) staff noted that populations of Pacific Lampreys, Lampetra tridentata, were apparently declining to perilously low numbers. Pacific Lampreys were listed as an Oregon State sensitive species in 1993 and were given further legal protected status by the state in 1997 (OAR 635-044-0130). Lamprey status is difficult to assess for several reasons: 1) Most observations of lampreys in fresh water are of juveniles and it is difficult to tell the various species apart, even to the extent that the various species are currently clearly designated; 2) Data on lamprey is only collected incidental to monitoring of salmonids. The design and efficiency of the data collection effort is not always adequate for lampreys; and 3) We have very few historic data sets for lampreys. Therefore we often cannot determine how the abundances and distributions we see now compare with those in the past. The limited data that we have suggests that lampreys have declined through many parts of their ranges. The most precipitous declines appear to be in the upper Columbia and Snake basins where we have some historic data from mainstem dam counts. Pacific Lampreys have declined to only about 200 adults annually passing the Snake River dams. We also have evidence of declines of Pacific Lampreys in the lower Columbia and on the Oregon coast, although our data is quite limited. We have little to no information about any of the other species of lampreys. We are not even sure whether some of the recognized species, like the River Lamprey (L. ayresi), is still present in Oregon. This paper concludes with a Problem Analysis for Oregon lampreys. Our biggest problem is poor information, ranging from not knowing basic species identity to having inefficient or no systematic monitoring of lamprey abundance and distribution. ODFW continued an annual harvest on Pacific Lamprey in the Willamette Basin in 2001, but we lack the necessary information to assess the affects of the harvest on the population. Major habitat problems that affect lampreys include upstream passage over artificial barriers, a need for lamprey-friendly screening of water diversions, and urban and agricultural development of low-gradient flood plain habitats. Title: Oregon lampreys : natural history, status, and analysis of management issues Author: Kostow, Kathryn Year: 2002, 2008, 2005 Executive Summary The jawless lampreys are remnants of the oldest vertebrates in the world. Oregon has somewhere between eight and a dozen species of these primitive fishes. Their taxonomy is obscure because different species tend to look very similar through most of their life cycle, and they have not been well-studied in Oregon. Lampreys occur in the Columbia Basin, including the lower Snake River, along the Oregon coast, in the upper Klamath Basin, and in Goose Lake Basin in southeastern Oregon. They all begin life in fresh water where juveniles burrow into silt and filter feed on algae. As some species approach adulthood they migrate to the ocean or to lakes where they briefly become ecto-parasites, feeding on other live fishes by attaching to them with sucker disc mouths. Other species remain non-parasitic. In addition to some enigmatic species identities, we generally have very little information about the detailed distributions, life histories and basic biology of lampreys. Lampreys became a conservation concern in the early 1990s when tribal co-managers and some Oregon Department of Fish and Wildlife (ODFW) staff noted that populations of Pacific Lampreys, Lampetra tridentata, were apparently declining to perilously low numbers. Pacific Lampreys were listed as an Oregon State sensitive species in 1993 and were given further legal protected status by the state in 1997 (OAR 635-044-0130). Lamprey status is difficult to assess for several reasons: 1) Most observations of lampreys in fresh water are of juveniles and it is difficult to tell the various species apart, even to the extent that the various species are currently clearly designated; 2) Data on lamprey is only collected incidental to monitoring of salmonids. The design and efficiency of the data collection effort is not always adequate for lampreys; and 3) We have very few historic data sets for lampreys. Therefore we often cannot determine how the abundances and distributions we see now compare with those in the past. The limited data that we have suggests that lampreys have declined through many parts of their ranges. The most precipitous declines appear to be in the upper Columbia and Snake basins where we have some historic data from mainstem dam counts. Pacific Lampreys have declined to only about 200 adults annually passing the Snake River dams. We also have evidence of declines of Pacific Lampreys in the lower Columbia and on the Oregon coast, although our data is quite limited. We have little to no information about any of the other species of lampreys. We are not even sure whether some of the recognized species, like the River Lamprey (L. ayresi), is still present in Oregon. This paper concludes with a Problem Analysis for Oregon lampreys. Our biggest problem is poor information, ranging from not knowing basic species identity to having inefficient or no systematic monitoring of lamprey abundance and distribution. ODFW continued an annual harvest on Pacific Lamprey in the Willamette Basin in 2001, but we lack the necessary information to assess the affects of the harvest on the population. Major habitat problems that affect lampreys include upstream passage over artificial barriers, a need for lamprey-friendly screening of water diversions, and urban and agricultural development of low-gradient flood plain habitats. Close

• 717. [Image] Effects of water quality on growth of juvenile shortnose suckers, Chasmistes brevirostris (Catostomidae: Cypriniformes), from Upper Klamath Lake, Oregon

  	One chapter of a seven chapter annual report from 1999 examining ecological issues regarding the shortnose and Lost River sucker populations in Upper Klamath Lake and Williamson River.
  	Citation × Citation Citation Abstract Copy Title: Effects of water quality on growth of juvenile shortnose suckers, Chasmistes brevirostris (Catostomidae: Cypriniformes), from Upper Klamath Lake, Oregon Author: Oregon Cooperative Wildlife Research Unit Year: 2000, 2005 One chapter of a seven chapter annual report from 1999 examining ecological issues regarding the shortnose and Lost River sucker populations in Upper Klamath Lake and Williamson River. Title: Effects of water quality on growth of juvenile shortnose suckers, Chasmistes brevirostris (Catostomidae: Cypriniformes), from Upper Klamath Lake, Oregon Author: Oregon Cooperative Wildlife Research Unit Year: 2000, 2005 One chapter of a seven chapter annual report from 1999 examining ecological issues regarding the shortnose and Lost River sucker populations in Upper Klamath Lake and Williamson River. Close

• 718. [Image] Range maps of terrestrial species in the interior Columbia River basin and Northern portions of the Klamath and Great Basins

  	Abstract Marcot, Bruce G.; Wales, Barbara C; Demmer, Rick. 2003. Range maps of terrestrial species in the interior Columbia River basin and northern portions of the Klamath and Great Basins. Gen. Tech. ...
  	Citation × Citation Citation Abstract Copy Title: Range maps of terrestrial species in the interior Columbia River basin and Northern portions of the Klamath and Great Basins Author: Marcot, Bruce G. Year: 2003, 2005, 2004 Abstract Marcot, Bruce G.; Wales, Barbara C; Demmer, Rick. 2003. Range maps of terrestrial species in the interior Columbia River basin and northern portions of the Klamath and Great Basins. Gen. Tech. Rep. PNW-GTR-583. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. 304 p. Current range distribution maps are presented for 14 invertebrate, 26 amphibian, 26 reptile, 339 bird, and 125 mammal species and selected subspecies (530 total taxa) of the interior Columbia River basin and northern portions of the Klamath and Great Basins in the United States. Also presented are maps of historical ranges of 3 bird and 10 mammal species, and 6 maps of natural areas designated by federal agencies and other organizations. The species range maps were derived from a variety of publications and from expert review and unpublished data, and thus differ in degree of accuracy and resolution. The species maps are available in computer versions and are indexed herein by common and scientific names. Keywords: Maps, species range, species distribution, wildlife, invertebrates, arthropods, amphibians, reptiles, birds, mammals, bats, biodiversity, endemism, natural areas, interior Columbia River basin, Klamath Basin, Great Basin. Title: Range maps of terrestrial species in the interior Columbia River basin and Northern portions of the Klamath and Great Basins Author: Marcot, Bruce G. Year: 2003, 2005, 2004 Abstract Marcot, Bruce G.; Wales, Barbara C; Demmer, Rick. 2003. Range maps of terrestrial species in the interior Columbia River basin and northern portions of the Klamath and Great Basins. Gen. Tech. Rep. PNW-GTR-583. Portland, OR: U.S. Department of Agriculture, Forest Service, Pacific Northwest Research Station. 304 p. Current range distribution maps are presented for 14 invertebrate, 26 amphibian, 26 reptile, 339 bird, and 125 mammal species and selected subspecies (530 total taxa) of the interior Columbia River basin and northern portions of the Klamath and Great Basins in the United States. Also presented are maps of historical ranges of 3 bird and 10 mammal species, and 6 maps of natural areas designated by federal agencies and other organizations. The species range maps were derived from a variety of publications and from expert review and unpublished data, and thus differ in degree of accuracy and resolution. The species maps are available in computer versions and are indexed herein by common and scientific names. Keywords: Maps, species range, species distribution, wildlife, invertebrates, arthropods, amphibians, reptiles, birds, mammals, bats, biodiversity, endemism, natural areas, interior Columbia River basin, Klamath Basin, Great Basin. Close

• 719. [Image] Recovery of wild salmonids in western Oregon forests : Oregon Forest Practices Act rules and the measures in the Oregon plan for salmon and watersheds

  	"September 8, 1999."
  	Citation × Citation Citation Abstract Copy Title: Recovery of wild salmonids in western Oregon forests : Oregon Forest Practices Act rules and the measures in the Oregon plan for salmon and watersheds Author: Independent Multidisciplinary Science Team (Or.) Year: 1999, 2005 "September 8, 1999." Title: Recovery of wild salmonids in western Oregon forests : Oregon Forest Practices Act rules and the measures in the Oregon plan for salmon and watersheds Author: Independent Multidisciplinary Science Team (Or.) Year: 1999, 2005 "September 8, 1999." Close

• 720. [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