Scott River Spawning Gravel Evaluation and Enhancement Plan
Transcription
Scott River Spawning Gravel Evaluation and Enhancement Plan
Scott River Spawning Gravel Evaluation and Enhancement Plan Submitted to: Pacific States Marine Fisheries Commission 205 S.E. Spokane Street, Suite 100 Portland, OR 97202 & California Department of Fish and Game 1455 Sandy Prairie Court Fortuna, CA 95540 Submitted by: Cramer Fish Sciences 13300 New Airport Road, Suite 102 Auburn CA 95602 In Partnership with: Philip Williams & Associates, Ltd. 550 Kearny Street, Suite 900 San Francisco, CA 94108 & The Siskiyou Resource Conservation District (SQRCD) 450 Main Street Etna, CA 96027 i EXECUTIVE SUMMARY The Scott River Spawning Gravel Enhancement Plan (Plan) was developed through a cooperative effort from Cramer Fish Sciences, The Siskiyou Resource Conservation District, Philip Williams & Associates, California Department of Fish and Game, and the Pacific States Marine Fisheries Commission. The document provides a description of the scientific approach used to identify salmonid spawning habitat conditions and prioritize potential enhancement locations and the results of the application of this approach on the Scott River Watershed. The broad-level study approach has been designed to use best available data and field sampling to assess watershed processes and determine potential impacts to salmonid spawning and incubation habitat. The Plan provides watershed stakeholders with a framework for identifying, quantifying and qualifying spawning habitat for anadromous salmonids within the Scott River Basin and for prioritizing and strategizing the protection and maintenance of quality habitat as well as enhancement of sub-optimal habitat. The Plan is programmatic in nature and accomplishes the following: Identifies the range of general salmonid spawning habitat conditions (i.e., substrate quantity/quality, morphologic features) that exists in key reaches of the watershed. Provides information on the most effective methods of spawning gravel enhancement currently used. Provides a basic monitoring and prioritization plan for the quantity and quality of salmonid spawning habitat (emphasizing coho salmon) within the watershed. Note: the Plan can be used not only to prioritize areas with the greatest potential for gravel enhancement but also for identifying areas with greatest habitat quantity and quality presently. Provides a simple tool for measuring potential, relative change in embryo survival from enhancement actions within the watershed. The ultimate goal of the Plan is to provide management tools that support the coexistence of a productive, viable basin fishery, a healthy economy, and a valued quality of life for the community of the Scott River Basin. The Plan is envisioned as a living document that will continue to be refined as river rehabilitation moves forward, more scientific information on Scott River salmonids is gathered, and more stakeholder outreach activities have been accomplished. This Plan focuses on enhancing the quantity and quality of spawning gravels through augmentation of sediment and structural habitat elements. It should be stressed that these are short-term fixes. Spawning gravel management should be incorporated into the larger framework of a watershed management plan. General Results Between 24 August and 16 October 2009, 33 of 51 river sub-reaches were sampled. Sample sites represent ~1.4% (211m) of the total length of watershed channel (317021 m). The Reaches sampled (218375 m) represent ~ 69% of the total watershed. A legacy of historic impacts still bares its mark on channel morphology and riparian plant communities of the Scott River Watershed. These historic effects comingle with modern impacts, affecting present day physical habitat quantity and quality, and in turn, the ecology of the watershed. ii While there may be site specific caveats at a scale beyond this study (e.g. immediately below Etna Reservoir; historically dynamited locations), observations suggest that the amount of coarse sediment and its rate of delivery are not limiting overall spawning habitat availability in the Scott River Watershed. However, elevated levels of fine sediment from natural and anthropogenic sources may mask the presence and suitability of coarse sediment. Monitoring identified existing levels of fine sediment that indicate impaired salmonid spawning areas. Embryo survival modeling demonstrated a wide range of habitat quality, including very high and extremely low survival estimates. Occurrence of Large Woody Material (e.g. logs, rootwads, snags) in sampled streams is much less than what the scientific literature suggests is needed for salmonids. While there is extensive quality habitat for coho spawning there are also numerous areas where improvements can be made. Specifically, there is an overall lack of LWM and an over-abundance of confined channels in the lower watershed. Ten (10) reaches within the Scott River watershed were identified as meeting the general requirements for coho spawning habitat but demonstrating physical properties that were less than optimal for spawning and incubation and having potential to benefit from gravel augmentation, structural enhancement or a combination of the two. Recommended actions and potential enhancement tools are identified for these reaches. iii TABLE OF CONTENTS LIST OF FIGURES ..................................................................................................................................VI LIST OF TABLES .................................................................................................................................VIII PROJECT NARRATIVE........................................................................................................................... 1 Background ..................................................................................................................................1 LOCATION................................................................................................................................................. 3 Watershed Impacts.......................................................................................................................5 Historical..................................................................................................................................7 Modern 8 PROJECT PURPOSE ................................................................................................................................ 9 Overview......................................................................................................................................9 Priority Questions ........................................................................................................................9 Target Objectives .......................................................................................................................10 APPROACH.............................................................................................................................................. 12 Assessing Potential Spawning Habitat Availability Basin-wide ...............................................12 Compile, Analyze, and Summarize Existing Data.................................................................12 Study Delineation – Watershed Provinces........................................................................ 12 Review of Hydrologic Data Sources................................................................................. 14 Results from Hydrologic Data Sources............................................................................. 14 Spawning Habitat Assessment ...............................................................................................15 Study Reaches................................................................................................................... 15 Reach Connectivity........................................................................................................... 17 Habitat Quality.................................................................................................................. 20 Pool-Riffle Spawning Ground Sustainability ................................................................... 23 Results from Assessment of Pool-Riffle Spawning Ground Sustainability...................... 23 Quantifying Substrate Quality .......................................................................................... 23 Quantify Gravel Mobility Rates........................................................................................ 32 Estimation of Peak Runoff................................................................................................ 32 Results of Estimation of Peak Runoff............................................................................... 33 Sampling of Woody Material............................................................................................ 42 Results from Woody Material Sampling .......................................................................... 42 Identify Quantity and Quality of Potential Spawning Habitat Watershed Wide ...................44 Habitat Model Description and Output............................................................................. 44 Classification of Impacted Habitat and Potential Enhancement ............................................53 Recommended Actions ..........................................................................................................53 Model Results ........................................................................................................................53 SPAWNING GRAVEL ENHANCEMENT PLAN AND RECOMMENDED ACTIONS ................. 57 Potential Enhancement Tools ................................................................................................57 Gravel Injection ................................................................................................................ 59 Spawning Bed Enhancement ............................................................................................ 59 iv Hydraulic Structure Placement ......................................................................................... 60 The Spawning Habitat Integrated Rehabilitation Approach ............................................. 63 Additional Considerations for Prioritization of Enhancement Projects.................................65 Estimating Costs ............................................................................................................... 66 Gravel Sources for the Scott River ................................................................................... 68 Reclamation ...................................................................................................................... 69 Permits and Approvals for Spawning Habitat Enhancement............................................ 69 CONCLUSIONS AND MANAGEMENT IMPLICATIONS...................................................73 Answers to Priority Study Questions .....................................................................................73 Use of the Scott River Spawning Habitat Management Plan ................................................75 Priorities for Spawning Gravel Management ................................................................... 75 Adaptive Management ...............................................................................................................78 Outreach.....................................................................................................................................79 ACKNOWLEDGEMENTS ..................................................................................................................... 79 LITERATURE CITED ............................................................................................................................ 80 APPENDIX A. FLOW ANALYSIS ...................................................................................................I v LIST OF FIGURES Figure 1. Map of the Scott River valley with gauging stations and approximate locations of study reaches. ................................................................................................................... 4 Figure 2. Historic spawning reaches for coho salmon in the Scott River watershed...................... 5 Figure 3. Historic wildfires of the Scott River Watershed. Courtesy of SQRCD. ......................... 7 Figure 4. Air photograph comparison near Fort Jones in A) 1944 and B) in 2010 and near Etna in C) 1944 and D) 2010............................................................................................ 8 Figure 5. Study provinces of the Scott River watershed with annual precipitation..................... 13 Figure 6. Identification of sample reaches and reach breaks for the Scott River salmonid spawning habitat study, July 2009 through July 2010. .................................................. 16 Figure 7. Percent gradient for Chinook salmon (left) and coho salmon (right). See Table 13 (below)............................................................................................................................ 17 Figure 8. Analysis of connectivity of streams in the Scott River watershed compared to spawning period for coho and Chinook salmon. ............................................................ 18 Figure 9. Stream opening priority in the Scott River watershed................................................... 19 Figure 10. Detected natural and man-made barriers to adult salmonid passage in Scott River Watershed. ............................................................................................................ 20 Figure 11. Identification of sampled and unsampled waters of the Scott River, July 2009 through July 2010. .......................................................................................................... 21 Figure 12. Relationship between channel morphology and reach averaged gradient sampled in the Scott River Watershed, California. Squares = mean; Whiskers = min and max. .................................................................................................................. 23 Figure 13. Sustainability of riffle pool units studied. ................................................................... 24 Figure 14. Proportional distribution of female coho salmon fork length (mm FL) in the Scott River watershed. All data collected between 16 November 2004 and 17 January 2005................................................................................................................... 27 Figure 15. Gravel composition (D50) in the Scott River watershed; data provided by pebble count surveys .................................................................................................................. 28 Figure 16. The relationship between substrate size classes (0.85 and 9.5 mm) and salmon embryo survival. Data taken from Tappel and Bjornn (1983) to build regression models). .......................................................................................................................... 29 Figure 17. Results of embryo survival model with survival to emergence in the Scott River watershed. ....................................................................................................................... 31 Figure 18. Normalized average bedload transport among study reaches of the Scott River Watershed, California..................................................................................................... 34 Figure 19. Estimated transport rate for coho-appropriate spawning gravel sizes per study reach. .............................................................................................................................. 35 Figure 20. Sediment Supply Index for study reaches of Scott River Watershed, California. ..... 36 Figure 21. An example of the Scour chains used to determine sediment mobility. ..................... 38 Figure 22. Estimated timing of Chinook and coho salmon spawning and incubation for the Scott River, CA. ............................................................................................................. 39 Figure 23. Length frequency of female coho salmon observed during carcass surveys of the Scott River, California. Data from SQRCD surveys. ..................................................... 40 Figure 24. Estimated redd depths for coho salmon length frequencies for Scott River, California. ....................................................................................................................... 41 Figure 25. Density (percent surface area coverage) of woody material (>3 in diameter) within study reaches of the Scott River.......................................................................... 43 vi Figure 26. Prioritization of coho salmon spawning habitat. ......................................................... 44 Figure 27. Median diameter (D50) of spawning gravel plotted against body length of a spawning salmonid. Solid squares denote samples from redds; open triangles are ‘‘unspawned gravels,’’ which are potential spawning gravels sampled from the undisturbed bed near redds (in Kondolf 2000 as modified from Kondolf and Wolman 1993). ............................................................................................................... 47 Figure 28. Predicted potential spawning reaches using substrate size and estimated reach gradient. Coho salmon redds identified during three years of surveys are overlaid. Black indicates no physical data collected. .................................................................... 48 Figure 29. Classification process of enhancement potential......................................................... 50 Figure 30. Percent fines in the Scott River watershed. ................................................................. 51 Figure 31. Regression model for coho spawning density as it relates to pool spacing (Montgomery et al. 1999)............................................................................................... 52 Figure 32. Pool ratio in the Scott River watershed (Channel width/pool).................................... 52 Figure 33. Gravel injection below Englebright Dam, Yuba River, California. Photo courtesy of U.S. Army Corp of Engineers. .................................................................... 59 Figure 34. Strategic gravel placement on the lower American River, California......................... 60 Figure 35. Fall-run Chinook salmon spawning adjacent to large boulders placed in lower Mokelumne River, CA. Log jam placed adjacent to spawning gravel to provide heterogeneity. ................................................................................................................. 63 Figure 36. Conceptual spawning habitat model. The arrows indicate influences, the circles represent processes and characteristics, and the boxes are the results. .......................... 64 Figure 37. The SHIRA flowchart. The two primary components are phases and modes. Projects progress sequentially through specific project phases, ranging from the initial problem identification to long-term monitoring and adaptive management. During each of seven phases, four primary modes are used to collect and analyze data on which informed decisions can be based (from Wheaton et al. 2004). ............... 65 Figure 38. Potential gravel sources near the Scott River; Dredger tailings. ................................. 69 Figure 40. Basic flow diagram of adaptive management activities. ............................................. 78 vii LIST OF TABLES Table 1. Historical disturbance within the Scott River Watershed. ................................................ 6 Table 2. Physiographic regions of the Scott River watershed and associated parameters. .......... 13 Table 3. Summary of streamflow records in the Scott River watershed. ..................................... 14 Table 4. Reported ranges of slope and channel morphology........................................................ 15 Table 5. Results of pebble counts and core samples within the Scott River Watershed. ............ 25 Table 6. Recommended gravel mixture for Scott River coho salmon spawning.......................... 27 Table 7. The estimated relative survival of salmon embryos in relationship to fine sediment in the Scott River watershed, California......................................................................... 30 Table 8. Calculated peak runoff for study reaches within the Scott River Watershed, California. ....................................................................................................................... 33 Table 9. Estimated redd depths for coho salmon length frequencies observed in the Scott River, California. ............................................................................................................ 40 Table 10. Information on scour chain stations installed throughout the Scott River Watershed October 2009 and recovered July 2010 ........................................................ 41 Table 11. Estimation of LWM from sampled reaches of the Scott River watershed. .................. 42 Table 12. Relative priority of channel gradient for spawning by Chinook and coho salmon (Montgomery et al. 1999)............................................................................................... 46 Table 13. Relative use of four primary stream habitats by Chinook and coho salmon (Buffington et al. 1999). ................................................................................................. 46 Table 14. Study reaches that met initial screening criteria in Chart 1. ......................................... 49 Table 15. Classification of impacted habitat and potential rehabilitation action.......................... 53 Table 16. A summary of salmonid spawning habitat enhancement/ augmentation techniques. ...................................................................................................................... 58 Table 17. Primary functions of instream structures in habitat applications. Source: Taken from Washington Department of Fish and Wildlife (2004). .......................................... 62 Table 18. Stewardship prioritization in the Scott River watershed. ............................................. 67 Table 19. Approximate cost (2010 year dollars) for common varieties of timber in Siskiyou County. Assume USD $0.06 – $0.10 km-1 for transportation costs from harvest location to enhancement site per log. Logs containing rootwads and/or canopy will be much more expensive. ........................................................................................ 68 viii PROJECT NARRATIVE Background The Scott River watershed supports populations of coho salmon Oncorhynchus kisutch, Chinook salmon O. tshawytscha, and steelhead O. mykiss and may hold the largest abundance of native coho salmon in the Klamath River basin tributary systems (Brown et al. 1994). The Scott River is important habitat for these populations and has been designated as a Scenic and Recreational River within the National Wild and Scenic Rivers System. The designation extends from the river’s confluence with the Klamath to its confluence with Schackleford Creek. A range of anthropogenic factors has contributed to the decline of Scott River salmonid populations. Decades of gravel and gold mining, stream channelization, and extensive beaver harvest have impacted the quality and quantity of available habitat for spawning and rearing. Spawning gravels have been depleted, stream systems have been simplified, and high quality rearing habitat has been dramatically reduced. When these impacts are combined with intensive agriculture, the geology and low gradient morphology of the area, and a warming, drying climate, the productivity of the habitat for salmon and steelhead has been degraded and reduced. The Scott River watershed has been listed as impaired in relation to sediment since 1992, and impaired in relation to temperature since 1998, pursuant to Section 303(d) of the Clean Water Act. Spawning surveys are conducted each year by California Department of Fish and Game (CDFG), Siskiyou Resource Conservation District (SQRCD), and the U.S. Forest Service (USFS) for fallrun Chinook salmon; information for coho salmon and steelhead is more limited. Some information on coho salmon has been provided by Maurer (2002) who provided information on distribution and run timing, sampling for genetic testing, and flow summaries, as well as recommendations for continued surveys with abundance estimates; and, Quigley (2005) who completed limited coho spawning surveys. Less than 600 fall-run Chinook salmon returned in 1992, although fluctuations occurred from 1991 –1996 when escapement estimates ranged from 586 – 13,511. In recent years, as few as an estimated 789 fall-run Chinook salmon returned to the basin (CDFG 2007). Coho salmon have exhibited similar declines, and are currently listed as Threatened by the Federal and California Endangered Species Act (CESA). Major impacts leading to the decline of spawning habitat in the Scott River have included nonpoint source water quality impairments such as excessive sediment and temperature levels (NCRWQCB 1995; Black 1998), impacts from historical mining operations (Watershed Sciences 2004), land-use practices and water development (West et al. 1989; Moyle et al. 2003). Several mitigation measures, including flow augmentation, fine sediment storage facilities, riparian vegetation replanting, road management, gravel cleansing, placement of large woody material (LWM) structures, construction of spawning channels, and screening of active water diversions have been suggested with varying degrees of implementation (West 1984; DWR 1991; Mount et al. 2003; Quigley 2003). The Shasta-Scott Coho Recovery Team (SSRT) made recommendations summarized in seven categories: Water Management, Water Augmentation, Habitat Management, Water Use Efficiency, Protection, Assessment and Monitoring, and Education and Outreach (SSRT 2003). Throughout the Scott River watershed, many individuals, groups, and agencies have been working to enhance and restore fish habitat and water quality. 1 These groups include, but are not limited to: the SQRCD; the Scott River Watershed Council; the French Creek Watershed Advisory Group; private timber companies; Siskiyou County and the Five Counties Salmon Conservation Process; the CDFG; the California Department of Water Resources; the USFS; the Scott River Water Trust and, the Klamath River Basin Fisheries Task Force. Preliminary work on the quality and quantity of spawning habitat has been implemented over the past 20 years (Sommarstrom et al. 1990; Quigley 2008), but a thorough evaluation and documentation has not been completed. The preliminary assessment of gravel quality along the Scott River and associated tributaries provides the foundation for a more in-depth assessment (Sommarstrom 2001; Quigley 2008). The SSRT recommended continuing and expanding existing surveys, quantifying spawning habitat, and using this information to prioritize projects for habitat restoration and enhancement (SSRT 2003). In the initial phase of the Scott River Watershed Council Strategic Action Plan (2006), it was recommended that a detailed assessment of factors limiting spawning, migration, and rearing affecting stream systems should be completed. This includes a study to determine the effects of dredger tailings on the Scott River floodplain and a stream habitat condition inventory of the watershed to determine what treatments may be needed and might be effective in improving upper valley stream function. The Recovery Strategy for California coho salmon (CDFG 2004) also identifies a watershed sediment budget and a detailed assessment of spawning gravels in the Scott River basin as a high priority to develop an effective, long-range management plan. Additionally, the 2008 Scott River Watershed-wide Permitting Program Incidental Take Permit (ITP) requires the development of a Spawning Gravel Enhancement Plan to guide the enhancement of spawning grounds for coho salmon as part of the mitigation program for the impacts caused by activities authorized by the Permitting Program. Expanding and completing work initiated in these studies, including developing a list of prioritized gravel augmentation sites, if warranted, will build a strong foundation for future spawning ground restoration and enhancement. The following Scott River Spawning Gravel Enhancement Plan (Plan) has been developed through the cooperative effort of Cramer Fish Sciences (CFS), SQRCD, Philip Williams & Associates (PWA), CDFG, and the Pacific States Marine Fisheries Commission. The following document provides a detailed description of the scientific approach used to identify habitat conditions and prioritize potential locations for enhancement, and the results of the application of this approach on the Scott River watershed as well as a description of techniques that can be used in rehabilitation. The study approach has been designed to use the best available data and field sampling to assess watershed processes and determine potential impacts to salmonids. This is a broad-level approach, providing generalized information best used for prioritization and planning of restoration projects. The area sampled is only a fraction (< 5%) of the watershed, and we understand how various habitat processes (e.g., large woody material or boulder deposition, encroachment by vegetation), occurring at smaller than reach-level scales, may have been missed in this assessment. It is important to conduct further monitoring after sites for enhancement have been identified, so habitat processes can be understood with greater confidence prior to restoration actions. 2 LOCATION The Scott River Basin is located in south-central Siskiyou County, California, about 30 miles south of the Oregon border (Figure 1). The Scott River is a principal tributary of the Klamath River and has an annual discharge of 489,800 acre-feet (U.S. Geological Survey (USGS) gage station). The basin is 813 square miles (2,106 km2) in area with elevation ranging from 8,300 ft (2,530 m) in the Marble and Salmon mountains to just under 2,000 ft (610 m) at the river’s mouth (SWRCB 2007). The Scott River originates in snow-fed headwaters on primarily U.S. Forest Service lands, slows down (River Mile (RM) 56) in the large alluvial Scott Valley (about 70,000 ac [28,328 ha]) composed of private farmland, and then drops (RM 21) again into a narrow forested canyon of mostly public land. Rainfall at Fort Jones in Scott Valley averages 17.47 in (44 cm) (Sommarstrom 2001). The river basin is a narrow alluvial floodplain that is about 28 mi (45 km) long and up to 4 mi (6.4 km) wide. The basin is located within the eastern portion of the Klamath Mountains and consists of bedrock from metasedimentary and metavolcanic rocks of Late Jurassic and possibly Early Cretaceous Age. The alluvial fill in the valley contains unconsolidated Pleistocene and recent deposits with an extensive area of granodioritic rock, a light-colored, coarse material that is noncohesive and high erodible (Laake 1979; Sommarstrom et al. 1990). The basin is bounded to the north and northwest by the Scott Bar Mountains, and by the Salmon Mountains to the west and southwest. The Scott Mountains bound the south and southeast part of the basin, and to the east are the Trinity Mountains. Annual precipitation within the basin is estimated to be 21 – 25 in (53 – 64 cm). Historic and current spawning areas are shown in Figure 2. 3 Figure 1. Map of the Scott River valley with gauging stations and approximate locations of study reaches. 4 Figure 2. Historic spawning reaches for coho salmon in the Scott River watershed. Watershed Impacts The modern Scott River Watershed has a legacy of natural and anthropogenic disturbances. Large scale natural disturbances in the watershed include fire and flooding both of which can result in excessive amounts of water, wood, and sediment being delivered to downstream reaches ( Table 1). Recent significant fire events include the 1955 Kidder Creek Fire and the 1987 fires in the head waters of Thompkins and Kelsey creeks (Figure 3). Recent significant flood events include the 1964, 1995, and 1997 winter storms. Historic and modern anthropogenic impacts in the watershed include mining, road building, dams, diversions, cattle ranching, agriculture, logging, beaver eradication, stream straightening and confinement by levees, bank stabilization, and water withdrawals. 5 Table 1. Historical disturbance within the Scott River Watershed. Watershed Disturbance Crater Creek Road building, mining and logging. Unknown fire history. Potentially suffered debris torrent in 1997 flood. Grouse Creek Road building, mining and logging. South Fork Scott River French Creek Etna Creek Patterson Creek Kidder Creek Shackleford Creek Extensive historic placer mining. Road building and logging since 1950s - 1960s. Unknown fire history Granitic watershed. Mining. Road building and logging. Unknown fire history. Unknown mining history. Road building and logging. Limited documented fire history. Lower alluvial section redirected from historic alignment and straightened. Unknown mining history. Road building and logging. Large fire in 1955 in middle of watershed. Lower alluvial section straightened and potentially realigned. Massive fire in 1955 followed by 1955 flood caused significant channel failure in alluvial area. Road building and logging. Areas of alluvial section leveed and potentially straightend and realigned. Significant historic mining. Road building and logging. Limited documented fire history. Areas of alluvial section leveed, rip rapped and potentially straightened and realigned. Moffet Creek Areas of highly erodible geology. Significant road building and logging. Documented areas of mass wasting along the channel. Several documented fires in watershed. Canyon Creek Unknown mining history. Road building and logging. Several documented fires in watershed. Tompkins Creek Scott River Road building and logging in 1980s. Large amount of headwaters of watershed burned in 1987. Debris torrent during 1997 flood. Beaver removal and extensive placer mining during 19th century. Army Corps of Engineers straightened, cleared and leveed a section from approx. Etna Creek to Fort Jones in 1938. Dredging north of Callahan (1935 to ~1950) created tailing pile. Leveed and rip rapped areas from late 1950's to 1990's. 6 Figure 3. Historic wildfires of the Scott River Watershed. Courtesy of SQRCD. Historical In the 1830’s beaver eradication in the Scott Valley was widespread (Sommarstrom et al. 1990). This potentially would have been devastating for resident coho salmon who frequently occupy areas close to beaver dens for rearing. In the 1850’s gold was discovered in Scott Bar triggering increased interest in the valley as a resource. In the next decade, large floods pushed the valley to the East as widespread placer mining was beginning to take place. By the end of the century the South Fork, Oro Fino, and Shackleford creeks as well as the mainstem Scott River were being mined for Gold. In the early to mid 1900’s agricultural use of the lowland valley increased with cattle and hay operations. Gold dredging began taking place in the 1930’s to 1940’s on the upper reaches of the mainstem Scott River and in Wildcat Creek. Road building and logging began to increase in the 1950’s as the watershed became a productive area for timber harvest. Concurrently, much of the mainstem Scott River and its tributaries in the lowland valley became straightened, leveed, and armored. Agricultural diversions of water began to increase from this time to the present day. Like many California watersheds, the Scott River has a legacy of extensive land use change and associated disturbance to the natural environment. A comparison of aerial photographs from 1944 to the present readily demonstrates the extent of land use change and river impacts in the lowland valley sections of the Scott River Watershed (Figure 4). Anthropogenic impacts have resulted in a lack of channel complexity from channel straightening and reduced amounts of woody material. As late as 1944 the mainstem Scott River 7 was still a complex channel with single-thread meandering, anabranching1, and braided channel morphologies. The present-day mainstem Scott River bares minor resemblance to its more complex form of 1944 although meandering and straight channel planforms are still present. The cumulative effect of these changes cannot be quantified, but it is clear that both the amount and quality and physical habitat has been reduced. Figure 4. Air photograph comparison near Fort Jones in A) 1944 and B) in 2010 and near Etna in C) 1944 and D) 2010. Modern Modern impacts in the Scott River watershed include stream modification from agricultural activities in the lowland valley, logging in the upper watersheds, and flow diversions throughout the basin. While the legacy of historical impacts still affect stream conditions this gravel plan will hopefully aid stakeholders in making scientifically based management decisions that best utilize the resources of the Scott River watershed. Mining and logging are two legacy impacts that are still affecting the potential of the Scott River watershed to support viable salmonid populations. Past gravel mining excavation continues to directly affect the size range of stream bottom gravels (and thus the quality of this physical habitat). Channel confinement by historic mining tailings indirectly affects the diversity of 1 A type of distributary river channel that separates from its trunk stream and may flow parallel to it for several kilometers before rejoining it. 8 stream habitat that might otherwise be available. Many of these tailing piles are too large for the adjacent watercourse to reshape. This has the effect of creating hydraulic conditions similar to bedrock canyons where sediment used by salmonids has a lower likelihood of persistence due to increased (or more efficient) sediment transport compared to unconfined reaches. The overextraction of streambed alluvium may also have stripped the alluvial cover from some river reaches exposing underlying bedrock – the net result of which is enhanced sediment transport, less persistent alluvium, and an overall loss of physical complexity. A full historical analysis would be needed to determine if and where this is the case. Logging in the watershed was historically widespread. Direct effects of logging include the removal of large streamside trees that would have created hydraulic diversity while persisting through large flood events. Indirectly, logging reduces the amount of woody material supplied to streams as well as the age and strength of logs available for recruitment to a stream. Woody material must be of a certain size and strength to withstand hydraulic forces typical of flood stages (Abbe and Montgomery 1996). When woody material recruited by the stream is of inadequate age and size, the persistence of wood-related morphologic features is notably less (Brown and Blomberg 2009). Cumulatively this results in less available physical habitat for salmonids and reduced quality for existing habitat. PROJECT PURPOSE Overview The Scott River Spawning Gravel Evaluation and Enhancement Plan (Plan) has been prepared for the CDFG and Pacific States Marine Fisheries Commission, in collaboration with the SQRCD. The Plan identifies areas where gravel for salmonid spawning (emphasizing coho salmon), could be effectively placed to improve habitat conditions. The Plan considers how gravels are recruited in the potential areas, and prioritizes gravel enhancement projects throughout the entire watershed. This project evaluates the quantity, quality, distribution, and sources of existing coarse sediment and spawning gravel supplies, and determines the appropriateness of spawning gravel augmentation in the Scott River and tributaries in Siskiyou County. Based on the results of this evaluation, we have developed this Plan which identifies areas of high quality spawning habitat that should be protected and maintained, recommends spawning gravel enhancement actions, identifies potential watershed reaches for spawning gravel augmentation, specifies augmentation methods and volumes, develops sediment composition specifications, and recommends initial augmentation sources. The Plan also identifies reaches where spawning habitat structures could enhance and/or retain existing gravel supplies and provides recommendations for priority stream reaches where spawning gravels should be augmented. Priority Questions The development of the Gravel Enhancement Plan has been designed to address the following priority questions: 9 Is spawning gravel available at strategic locations in the watershed that allow emergent fry access to suitable rearing habitat? Is the rate of coarse sediment delivered to spawning reaches in the Scott River (upper river and canyon reach) and in its tributaries limiting spawning habitat availability of current and projected population targets? Is the quality of the existing spawning gravel impaired by excessive fine sediment? Will survival of eggs to emergent fry be increased as a result of the project? Specifically, we wanted to determine coarse sediment supply, assess habitat quality and quantity, and perform statistical analyses of Scott River Watershed hydrology and geomorphology to address these questions. The overall goals of this gravel evaluation and enhancement plan are to provide a robust assessment of existing and historic conditions, provide habitat maps, hydrology assessment, robust comparisons in gravel quality and quantity, and identify priority sites for gravel augmentation, including recommendations for additions of instream structures. Target Objectives The overall goal of the proposed project is to evaluate the quantity, quality, distribution and sources of coarse sediment supply in the Scott River watershed, in specified reaches (see Study Delineation section). The project has the following target objectives: Coordinate with CDFG and SQRCD on obtaining landowner permission; coordinate all project activities with SQRCD and landowners. Obtain aerial photos with sufficient resolution for habitat mapping and classify available habitat; create a field sampling plan to ground-truth habitat analysis results. Conduct field sampling and collect habitat information at randomly-selected, replicated (by type) locations in each reach for ground-truthing; delineate habitat type with submeter Global Positioning System (GPS); create and populate a Geographic Information System (GIS) database with information on gravel quality (see below). Assess gravel quality in terms of size composition, and proportion of fine sediment; process core samples at USGS-certified laboratory; combine data with location information in spatial database. Use scour core methods at randomly-selected spawning habitat locations to measure hydraulic thresholds for surface particle mobility, bed scour depths, and sediment redeposition depths. Compile and analyze existing stream flow data in the Scott River Evaluate the need for spawning habitat structures to enhance and/or retain existing gravel supplies and, if deemed necessary, recommend at least five priority stream reaches where habitat structures would enhance ecosystem function. 10 Analyze field data to inform the gravel evaluation; develop recommendations and priorities for gravel augmentation; identify priority sites for gravel augmentation. Develop Scott River Spawning Gravel Evaluation and Enhancement Plan (Plan) to describe project activities, methods, results, and recommendations; include a monitoring plan, describing geomorphic monitoring (i.e., sediment mobility and transport processes), spawning gravel quantity, quality, and distribution, frequency of mobilization, and spawning gravel utilization by adult salmonids. While the Plan provides technical information on existing conditions and on restoration and enhancement methods, it is programmatic in nature and accomplishes the following: Identifies the range of general salmonid spawning habitat conditions (i.e., substrate quantity/quality, morphologic features) that exists in key reaches of the watershed. Provides information on the most effective methods of spawning gravel enhancement currently used. Provides a basic monitoring and prioritization plan for the quantity and quality of salmonid spawning habitat (emphasizing coho salmon) within the watershed. Note, the Plan can be used to not only prioritize areas with the greatest potential for gravel enhancement but also for identifying areas with greatest habitat quantity and quality presently. Provides a simple tool for measuring potential, relative change in embryo survival from enhancement actions within the watershed. It is important to note that similar to all lotic systems, the Scott River is dynamic and constantly going through natural, including climatic, and anthropogenic changes that will alter much that was observed in past and present (August 2009 and July 2010) monitoring data sets. This dynamic nature demands continued monitoring and vetting of information. It is also important to note that gravel augmentation and structural enhancement are just that, augmentation and enhancement. Management and/or restoration of watersheds requires overall management of watershed processes, including hydrology, sediment, water quality, vegetation, resource harvest, land management, and the effects of linked watersheds etc. Addressing the entire list is beyond the scope of this project. We hope the prioritization system developed here will facilitate the ongoing process of watershed management, and will provide a framework for evaluation of, and making recommendations on, the quality and management of salmonid spawning gravels within the Scott River Watershed. The following information provides descriptions and use for the evaluation process recommended to identify and prioritize potential gravel augmentation and structural placement enhancement sites in the Scott River Watershed. 11 APPROACH Assessing Potential Spawning Habitat Availability Basin-wide Habitat requirements for persistence of “focal species” define the attributes that must be present if that landscape is to meet the requirements of the species that occur there. The needs of focal species can be used to develop explicit guidelines regarding the composition, quantity, and configuration of habitat patches and the management regimes that must be applied to the resulting design (Lambeck 1997). For the purposes of identifying key physical parameters for the Scott River, we chose coho salmon as the focal species because its spawning requirements overlap with the two other anadromous salmonids in the watershed (Chinook salmon and steelhead) and because the coho population is presently the most imperiled salmonid in the watershed. The following provides the details and results of our approach. We have developed a scientifically rigorous system, using pre-existing and field-collected data, to assess habitat quantity and quality and prioritize habitat availability and rehabilitation potential within the Scott River basin. This approach has resulted in the identification of “non-habitat”, high quality habitat areas, and those sites with potential for improvement. “Non-habitat” by no-means suggests the habitat is unimportant. It simply identifies areas that do not meet the basic requirements for what we identify as coho salmon spawning habitat. In the following section, we describe the existing data, how habitat types and reaches were delineated, factors included to analyze habitat quality, potential enhancement tools, and the prioritization systems for reaches. How this approach was applied to the Scott River Basin and the results of applying this approach are described in the next section below (Results). Compile, Analyze, and Summarize Existing Data Study Delineation – Watershed Provinces Study reaches were determined by hierarchically examining physiographic properties of the Scott River Basin at different scales. For the watershed scale, we broke the watershed up into study providences using climate and relief (a surrogate for geology) as first order filters of the watershed, because they are dominant exogenous controls on stream morphology and resulting physical habitat (Grant and Swanson 1995; Montgomery et al. 1995, 1996; Bisson et al. 2006). Using the digital elevation model and mean annual precipitation isohyetal layers, we qualitatively subdivided the Scott River watershed. Our initial screening at the watershed scale resulted in six physiographic drainages: East, West-Dry, West-Wet, Canyon, Southwest, and South (Figure 5; Table 2). We further noted the occurrence of decomposed granitic soils (Sommarstrom 1990). At the reach scale, valley width and slope were used to subdivide streams within the above study basins longitudinally because these two variables drive fluvial geomorphic processes (Buffington et al. 2004; Bisson et al. 2006; White et al. 2010). 12 Figure 5. Study provinces of the Scott River watershed with annual precipitation. Table 2. Physiographic regions of the Scott River watershed and associated parameters. Morphology Area (sq. mi.) Canyon 121.0 West-Wet 179.4 West-Dry 54.7 East 282.0 South East 124.6 Southwest 52.0 *DG = decomposed granite DG* (% Area) NA 17% 59% NA 8% 73% Precipitation Approximate Max. Elevation (ft) 8300 8300 8000 6000 8550 7800 13 Max. Mean Annual Precipitation (in) 85 65 55 35 33 47 Avg. Mean Annual Precipitation (in) 54 44 37 28 26 33 Snow Yes Yes Yes No Yes Yes Review of Hydrologic Data Sources Streamflow is considered the master variable in fluvial systems and ultimately all decision making rests on reliable hydrologic data for a sufficient period of time to obtain statistically relevant results. Our team reviewed streamflow data sources within the Scott River watershed to identify data gaps that may aid CDFG and the SQRCD in assessing stream behavior. Discharge records have been primarily focused on the mainstem Scott River and date back to 1910 (Table 3). From those early times, the USGS has operated and maintained several gages in the basin, but the operations of many have shifted responsibility to the California Department of Water Resources. Moreover, the SQRCD has begun operating gages on tributary sites. Table 3. Summary of streamflow records in the Scott River watershed. Province Site Station ID Operator Type(s) of Data East Fork Scott River at Callahan F26050 DWR 15-min, daily mean, daily min/max 2002-2003, 2005, 2007 EF Scott R NR Callahan CA 11518000 USGS Daily data, daily statistics, monthly statistics, annual statistics 1910-1911 EF Scott R Callahan 11518050 USGS Daily data, daily statistics, monthly statistics, annual statistics, peak streamflow 1960-1974 EF Scott R BL Houston C NR Callahan CA 18010208 USGS Daily data, daily statistics, monthly statistics, annual statistics, peak streamflow 1970-2006 EF Scott R AB Kangaroo C NR Callahan CA 11517950 USGS Daily data, daily statistics, monthly statistics, annual statistics, peak streamflow 1970-2006 South Fork Scott River near Callahan F28100 DWR 15-min, daily min, mean, and max, rating table 2002-2003, 2005, 2007 SF Scott R NR Callahan CA 11518200 USGS Daily data, daily statistics, monthly statistics, annual statistics, peak streamflow 1958-1960 East/ Mainstem Scott River near Scott Bar F25040 DWR 15-min, daily mean, daily min/max 2005-present Canyon/ Mainstem Scott River near Fort Jones 11519500 USGS Real-time, daily data, daily statistics, monthly statistics, peak streamflow 1941-present Mill Creek near Mugginsville F25480 DWR 15-min, daily min/max 2005-present Southeast Southwest West Side Wet Shackleford Creek near Mugginsville West Side Dry French Creek near HWY 3 Years Available 2004-present F25650 DWR 15-min, daily mean, daily min/max 2005-present Results from Hydrologic Data Sources There has been an increase in Scott River basin streamflow gages since the first gage was installed in 1910. Moreover, the range of gages has also increased to tributaries of the mainstem covering a greater geographic scope. However, streamflow estimates from the East province appear to be lacking. Also, long term data that can be considered statistically significant for hydrologic analysis is lacking in tributary gages. Our recommendations are that gages be 14 operated and maintained in the physiographic provinces outlined in this study. This will allow stakeholders to objectively evaluate streamflow in lieu of geographic diversity in the Scott River watershed. Spawning Habitat Assessment Study Reaches The existing slope (i.e., gradient) GIS layer developed by the Institute for Forest and Watershed Management – Humboldt State University Foundation (Lamphear 2004) was utilized to identify breaks in slope. These gradient breaks and a qualitative assessment of changes in valley width were used to delineate study reaches within the selected tributaries and main stem Scott River. Streams were visually assessed for viable physical habitat using known relationships between channel morphology and slope (Table 4; Figure 6; and Figure 7). Valley widths were qualitatively delineated into canyon, transition, and valley segments (Grant and Swanson 1995; Bisson et al. 2006). Within this framework, local knowledge of the watershed was used to determine study sites based on landowner access, stream accessibility and presence and absence of spawning from past monitoring. Table 4. Reported ranges of slope and channel morphology. Position Slope Range* Morphology Valley < 1% Free Pool Riffle Upper Valley/Canyon 1 – 2% Forced Riffle Pool/Plane Bed Canyon 2 – 5% Plane Bed/Step Pool/Forced Pool Headwaters > 5% Step-pool/Cascade/Bedrock Controlled 15 Figure 6. Identification of sample reaches and reach breaks for the Scott River salmonid spawning habitat study, July 2009 through July 2010. 16 Figure 7. Percent gradient for Chinook salmon (left) and coho salmon (right). See Table 13 (below). Reach Connectivity Timing of Stream Opening In order for streams to be considered for spawning habitat, they must be accessible at the appropriate time for focal salmonids to use them. That is, the stream that holds the habitat must connect to waterways further downstream at times when adults are migrating upstream, and during the spawning season. We used weir counts redd and carcass survey reports from Maurer (2002), SQRCD (2007) and CDFG weir counts, as reported in USFWS (1998), to identify adult migration timing of coho and Chinook salmon. We then used the available flow data for our primary stream reaches along with field surveys to identify when each of these reaches became connected to the lower system (APPENDIX A. FLOW ANALYSIS; Figure 8 and Figure 9). 17 Reach Stream Mainstem 1 Scott River (Canyon) Mainstem 2 Scott River (Ft Jones) Mainstem 3 Scott River (Below Youngs Dam) Mainstem 4 Scott River (Above Youngs Dam) Mainstem 5 Scott River (Tailings) Study Drainages Canyon West side Wet West side Dry South West South East Spawning Period Species East Side Priority Medium High ? ? Tompkins Creek Canyon Creek Shackleford Creek Kidder Creek Patterson Creek (Etna) Patterson (Ft Jones) Etna Creek French Creek Sugar Creek South Fork Scott River Wildcat Creek Grouse Creek Crater Creek East Fork Scott River Indian Creek Moffett Creek Rattlesnake ? ? Low ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 1 2 3 4 1 2 3 4 Always Connect Always Connect 1Disconnected until Mainstem opens ? ? ? ? Always Connect Coho Time Period Chinook Week Month 1 2 3 4 1 2 October 3 November 4 December Stream disconnected or non-spawning period Range of period when stream has been know to connect Consistently connected Spawning period Figure 8. Analysis of connectivity of streams in the Scott River watershed compared to spawning period for coho and Chinook salmon. 18 January Figure 9. Stream opening priority in the Scott River watershed. Physical Barriers We used a combination of data from Calfish, a collaborative website that provides access to anadromous fish datasets (e.g., anadromous abundance, barriers, and restoration projects; available online at http://www.calfish.org/DataandMaps/tabid/88/Default.aspx), and groundtruthing to identify natural and artificial barriers to adult salmonids in the Scott River watershed. Our assumption was that for successful fish passage to occur at a given site, the ratio of drop height to pool depth must be greater than or equal to 1:1.5 or a minimum of 2 ft (0.6 m) depth (Robison et al. 1999). We used estimated maximum jump height for Chinook salmon (12 ft; 3.67 m), coho salmon (4.82 ft; 1.47 m) and steelhead (3.47 ft; 1.03 m) (Meixler et al. 2009). 19 Physical Barriers in Scott River Watershed Two natural and two man-made barriers were detected in the watershed (Figure 10). Figure 10. Detected natural and man-made barriers to adult salmonid passage in Scott River Watershed. Habitat Quality Overall Results Habitat types were delineated using high-resolution aerial photographs and field observations. Between 24 August and 16 October 2009, we sampled 33 of 51 river sub-reaches (Figure 6). Our sample sites represent ~1.4% (211m) of the total length of watershed channel (317021 m). 20 The Reaches sampled (218375 m) represent ~ 69% of the total watershed. This extrapolates to ~5,119,337 m2 (512 hectares; 1,245 acres) of active channel (mean channel width 19 m). Mean channel widths ranged from 12 ft (4 m) at Moffett Creek (Reach 5) to 407 ft (124 m) at Scott River (Reach 5). Mean stream gradients ranged from almost 0 at Kidder Creek (Reach 1) to 8.6 in Canyon Creek (Reach 1). Pool ratios ranged from 0.8 in Canyon Creek (Reach 2) to roughly 0 at Kidder Creek (Reach 1). Mean substrate particle size (pebble counts) ranged from 25.9 mm (D50 = 7.1 mm) in Scott River Reach 2 to 287.2 mm (D50 = 145.5 mm) at Shackleford Creek (Reach 4). Woody material coverage of surface area ranged from 0% at numerous locations to 3.3% at French Creek (Reach 3). Percent of fine substrate (< 9.5 mm diameter) by weight ranged from 12.2% average at Kidder Creek (Reach 4) to 59.8% at Kidder Creek (Reach 5). Figure 11. Identification of sampled and unsampled waters of the Scott River, July 2009 through July 2010. 21 Stream Habitat and Morphologic Mapping In conjunction with surveying and sediment data collection morphologic mapping was performed using criteria developed by Montgomery and Buffington (1997). The Montgomery and Buffington (1997) classification is intended for reach scale morphologic mapping in mountain drainage basins that delineates dune-ripple, riffle-pool, step-pool, plane bed, and cascade morphologies based on slope, material size, bed material patterns, confinement, and pool spacing. For our surveys, each of these characteristics were recorded and entered into a database and a primary and secondary classification was given. This information, in conjunction with differences in gradient, percent of various channel unit types, stream confluences and channel width and bankfull depth helped us refine study reaches of the mainstem Scott River and its tributaries. Results from Stream Habitat and Morphologic Mapping Figure 12 shows the relationship between measured average stream slope and morphology. An example of this is a number of cascade reaches that by slope would otherwise be classified as step-pool or plane bed. Morphologic mapping of the Scott River Watershed illustrates known general trends with slope except when potential anthropogenic disturbances disrupt natural water and sediment properties. Typically, riffle-pool and plane bed reaches are most susceptible to watershed disturbances that impact the supply of water, sediment, or wood. Step-pool and cascade reaches can exhibit a response to watershed impacts as well, but typically not as pronounced (Montgomery and Buffington, 1997). Potential sampling bias could have also skewed morphologic mapping because site access was limited to sites with a close proximity to roads, indicating a potential legacy of anthropogenic disturbances. For example, Etna Reach 2 was classified as cascade due to the random spatial pattern of large boulders and weak proto-steps developing. Notably, this reach was upstream of a man-made crossing that likely affected (or forced) the stream morphology by controlling the downstream slope. Without the crossing the reach would likely be a step-pool morphology. A natural anomaly is found in Kidder Creek Reach 4, where a band of bedrock created a local slope control at the study reach. The reach was classified again as cascade due to the presence of random boulders and intermittent steps. Upstream of this reach, gradient appeared to be in excess of 4%. 22 0.06 0.05 Slope (ft/ft) 0.04 0.03 0.02 0.01 0.00 Cascade (n=11) Step Pool (n=2) Plane Bed (n=3) Riffle Pool (n=17) Morphology Figure 12. Relationship between channel morphology and reach averaged gradient sampled in the Scott River Watershed, California. Squares = mean; Whiskers = min and max. Pool-Riffle Spawning Ground Sustainability For alluvial reaches with non-forced morphologies, we utilized a metric for riffle and pool sustainability that relates variations in the channel width to variations in the bed topography for riffle and pool cross sections (Caamano et al. 2009). The equation, (BR/BP) – 1 = (DZ/HR) is used as a threshold for a velocity convergence between pools and riffles to occur, implying maintenance of form (BR = riffle width at bankfull, BP = pool width at bankfull, DZ = residual pool depth, HR = bankfull riffle depth). Alluvial reaches that were single thread and did not have forced pools were filtered from our total data set and evaluated for sustainability. These reaches include the mainstem Scott River reaches 1, 2, 3, 4, and 5, Moffett Creek reaches 4 and 5, French Creek reach 1, Patterson Creek reach 1, and Shackleford Creek reach 1. Results from Assessment of Pool-Riffle Spawning Ground Sustainability Results suggest that all of the reaches analyzed except one (Moffett Creek reach 5) are sustainable based on their geometry (Figure 13). While many of these sites are considered “sustainable”, the results highlight that pool depths could be enhanced in confined reaches by selectively widening riffle areas promoting greater flow divergence over riffle crests and subsequent convergence in downstream pools. Alternatively, channel complexity and pool volumes could be enhanced through the use of instream wood structures. This would be a temporary fix unless a conjunctive riparian corridor restoration plan is developed. Quantifying Substrate Quality Bed Substrate Quality We used both surface and subsurface grain size distributions to characterize the substrate. According to Kondolf (2000), two key environmental parameters are of interest when assessing the quality of streambed material for salmonid spawning: 23 (1) The size of the framework gravels (the larger gravels that make up the structure of the deposit) is needed to assess whether gravels are small enough to be moved by a given salmonid when constructing a redd. (2) The level of interstitial fine sediments which cannot be so high as to interfere with incubation or emergence. 3 2.5 Unsustainable DZ/HR 2 1.5 1 Sustainable 0.5 0 0 0.5 1 1.5 2 2.5 3 (BR/BP) -1 Figure 13. Sustainability of riffle pool units studied. Surface Samples For the surface samples, pebble counts were collected at 4 – 10 (mean 6) randomly selected transects (~100 samples per transect) at each site using methods similar to those of Bauer and Burton (1993). Surveyors collected substrate samples by hand every 1 ft (~0.3 m) along transects and used a template to measure substrate size. Substrate from pebble counts were categorized into 12 sizes: <8.0 mm, 8.0 mm, 16.0 mm, 22.2 mm, 31.8 mm, 44.5 mm, 63.5 mm, 89.0 mm, 127.0 mm, 177.8 mm, 254.0 mm, and >254.0 mm. The categorization was based on the largest slot (round hole with specified diameter) through which an individual pebble could not be passed (Merz et al. 2006). These data were incorporated into the GIS database and map. Table 5 provides the mean, D50 and D84 substrate size of the pebble counts, percent wood and percent exposed bedrock for the sampled reaches. Subsurface Fine Sediment At designated sites, 2 – 8 (mean 4) subsurface (core) samples were collected using a McNeil core sampler (St-Hilaire et al. 1997). In the field, substrates were sieved through screens of the following sizes: 9.5 mm; 12.7 mm; 16.0 mm; 22.2 mm; 31.8 mm; 44.5 mm; 63.5 mm; 88.9 mm; 127.0 mm; 177.8 mm; and, 254.0 mm. Each size-class was weighed and data recorded. Material smaller than 9.5 mm and residual water were retained, and then transported to the lab for further analysis. This material was separated out to size classes smaller than 9.50 mm and percentage smaller than 0.85 mm because of their effect on embryo development, survival, and fry emergence (Tappel and Bjornn 1983). Size classes were dried at 70°C for 24 h, weighed and 24 data recorded. Table 7 has the percent by weight of substrate less than 9.5 mm and 0.85mm from the core samples in the sampled reaches. Results from Substrate sampling Table 5. Results of pebble counts and core samples within the Scott River Watershed. Site Stream Reach Province Mean Substrate (mm) D50mm D84mm Percent <9.5 Percent <0.85 Percent Wood Percent Bedrock 1 Canyon Creek 1 Canyon 200 68 345 15.7 1.7 0.3 0.0 2 Canyon Creek 2 Canyon 240 54 434 13.6 3.4 0.4 9.1 4 Crater Creek 1 South East 94 56 149 17.0 3.1 0.9 0.0 9 Etna Creek 1 West Side Granitic 58 36 66 25.6 8.2 1.6 0.0 10 Etna Creek 2 West Side Granitic 210 62 196 22.2 3.2 0.5 0.0 12 French Creek 1 West Side Granitic 81 50 85 20.8 5.3 1.6 0.0 13 French Creek 2 West Side Granitic 97 38 142 25.1 8.0 1.7 1.0 14 French Creek 3 West Side Granitic 123 61 146 17.0 2.8 3.3 18.5 15 French Creek 4 West Side Granitic 137 79 192 21.2 5.0 3.1 0.0 16 Grouse Creek 1 South East 139 46 215 32.6 6.7 0.0 19.0 18 Kidder Creek 1 West Side Non-Granitic 32 18 38 40.6 14.8 1.6 0.0 19 Kidder Creek 2 West Side Non-Granitic 48 29 59 31.9 13.1 0.0 0.0 21 Kidder Creek 4 West Side Non-Granitic 124 66 262 12.2 1.7 0.6 0.0 22 Kidder Creek 5 West Side Non-Granitic 198 73 374 59.8 17.0 0.0 12.1 25 Moffett Creek 3 East Side 71 17 115 41.1 12.1 0.0 1.5 26 Moffett Creek 4 East Side 31 19 40 46.7 15.0 0.6 0.0 27 Moffett Creek 5 East Side 46 29 59 31.9 12.8 0.6 0.0 31 Patterson Creek 1 West Side Non-Granitic 55 31 71 30.5 10.2 0.3 0.0 32 Patterson Creek 2 West Side Non-Granitic 83 46 350 31.1 7.9 0.3 0.0 35 S. Fork Scott River 2 South West 110 99 148 17.5 3.5 0.0 0.0 36 S. Fork Scott River 3 South West 241 82 433 13.3 2.0 0.6 22.1 37 S. Fork Scott River 4 South West 121 64 195 18.0 3.4 1.3 0.7 38 Scott River 1 Mainstem 159 5 79 47.5 16.0 1.2 16.0 39 Scott River 2 Mainstem 26 7 20 58.8 20.4 2.1 0.0 40 Scott River 3 Mainstem 37 25 32 42.6 14.7 0.0 0.0 41 Scott River 4 Mainstem 58 38 65 30.5 9.2 0.0 0.0 42 Scott River 5 Mainstem 93 62 109 21.1 6.6 0.0 0.0 43 Shackleford Creek 1 West Side Non-Granitic 62 35 74 27.1 6.9 0.3 0.0 44 Shackleford Creek 2 West Side Non-Granitic 192 71 367 19.2 4.2 1.3 0.0 45 Shackleford Creek 3 West Side Non-Granitic 82 35 89 49.9 9.4 0.0 41.5 46 Shackleford Creek 4 West Side Non-Granitic 287 145 463 22.1 3.7 0.3 0.0 49 Tompkins Creek 1 Canyon 110 70 154 17.4 4.8 1.9 0.0 50 Tompkins Creek 2 Canyon 100 43 145 21.1 3.1 2.3 0.0 25 Spawning Gravel Quality We assessed gravel quality to determine how well the composition of existing substrates compared to species-specific requirements for substrate size. In general, spawning females excavate gravel to create a substrate bed depression, but not all material needs to be mobilized, just ample amounts to construct the redd. Spawning will not be successful if adequate amounts of gravel-sized material cannot be mobilized. In salmonids, fish size is directly proportional to maximum movable substrate size, and can be used to effectively determine upper, speciesspecific size limit criteria for suitable spawning gravels. Kondolf (2000) describes a method for determining appropriate spawning substrate size of a population whereby the maximum movable substrate size for spawning female salmonids was defined as 10% of the average female’s length (Figure 14). We used sex and fork length (mm FL) data collected from post-spawn coho salmon in the Scott River watershed (unpublished data provided by SQRCD) to calculate the average female size, and used 10% of the average female’s FL as the values to define the maximum movable material size for this population. We also used FL frequency distributions to calculate 10% FL50 and FL84 values. All escapement data provided were collected between 16 November 2004 and 17 January 2005. Mean, FL50 and FL84 values were compared against existing substrate conditions to determine habitat suitability indices. Specifically, substrate D50 and D84 were used to evaluate the suitability of existing spawning habitat and identify the potential for restoration in different mainstem and tributary reaches throughout the watershed. Results from Spawning Gravel Quality Assessment – Appropriate size classes for Scott River coho salmon Female coho salmon FL ranged from 540 to 830 mm FL with a mean of Mean 676 mm FL +/0.3 SE for the Scott River watershed. Median (FL50) length was 671 mm FL while FL84 was 728 mm FL (Figure 14). The corresponding values for 10 % mean FL, FL50, and FL84 to define and assess the suitability of maximum movable substrate sizes were 67.6 mm, 67.1 mm, and 72.8 mm, respectively. 26 0.20 0.18 0.16 0.14 0.12 0.10 0.08 0.06 0.04 0.02 0.00 500 520 540 560 580 600 620 640 660 680 700 720 740 760 780 800 820 840 860 880 900 Female FL (mm) Figure 14. Proportional distribution of female coho salmon fork length (mm FL) in the Scott River watershed. All data collected between 16 November 2004 and 17 January 2005. Because substrate size classes less than 9.5 mm have been associated with lower salmonid embryo survival (Tappel and Bjornn 1983), these size classes were removed from the gravel mixture (i.e. 4 and 8 mm). In their place, we increased the percent (by number) of material in the next three larger size classes (i.e. 16 – 32 mm) proportionally to what was removed. In this way, we provided a complex mixture of coarse sediment that could be utilize by the majority of the spawning female population while avoiding potentially detrimental size classes for coho embryos (Table 6). Table 6. Recommended gravel mixture for Scott River coho salmon spawning. Diameter (mm) 4 8 16 22 32 44 64 76 89 127 178 Percent of population 0 0 18 26 24 20 5 5 1 0.5 0.5 27 Figure 15. Gravel composition (D50) in the Scott River watershed; data provided by pebble count surveys Embryo Survival Model We used the results from Tappel and Bjornn (1983) to build a regression model of salmon embryo survival to percent substrate smaller than 9.50 mm and 0.85 mm (Figure 16). We then input the proportion of substrate smaller than 9.50 mm and 0.85 mm at each of our sample locations into the model to predict salmon embryo survival. 28 Estimated percent embryo survival Estim ated percent embryo susrvival 0.85 mm 100 80 y = -0.1474x2 - 2.0339x + 98.248 R2 = 0.8901 60 40 20 0 0 5 10 15 20 25 Proportion of substrate less than 0.85 mm Estim ated percent em bryo survival 9.5 mm 100 2 y = -0.0417x + 0.6775x + 100 2 R = 0.8089 80 60 40 20 0 0 10 20 30 40 50 60 Proportion of substrate less than 9.5 mm Figure 16. The relationship between substrate size classes (0.85 and 9.5 mm) and salmon embryo survival. Data taken from Tappel and Bjornn (1983) to build regression models). Results from Embryo Survival Model Fines known to affect Pacific salmon embryo survival ranged from just under 2% to nearly 60% of bed substrate within reaches accessible to anadromous salmonids (Table 7). Modeled embryo survival to emergence (Figure 17) ranged from 0 to 95% survival, assuming all other physical requirements were met (e.g., flow, temperature, disease). 29 Table 7. The estimated relative survival of salmon embryos in relationship to fine sediment in the Scott River watershed, California. Site 12.2 1.7 100 95 21 Kidder Creek 4 1 1 Canyon 15.7 1.7 100 95 36 Canyon Creek S. Fork Scott River 3 13.3 2.0 100 94 14 French Creek 3 South West West Side Granitic 17.0 2.8 99 92 2 Canyon Creek 2 Canyon 13.6 3.4 100 90 4 Crater Creek S. Fork Scott River S. Fork Scott River Tompkins Creek 1 South East 17.0 3.1 99 91 2 South West 17.5 3.5 99 90 4 South West 18.0 3.4 99 90 2 21.1 3.1 96 91 2 22.2 3.2 95 90 19.2 4.2 98 87 4.8 99 85 22.1 3.7 95 89 15 French Creek 4 21.2 5.0 96 85 12 French Creek 1 Canyon West Side NonGranitic West Side Granitic West Side Granitic 17.4 46 Etna Creek Shackleford Creek Tompkins Creek Shackleford Creek Canyon West Side Granitic West Side NonGranitic 20.8 5.3 96 84 42 5 6.6 96 78 27.1 6.9 88 77 13 French Creek 2 25.1 8.0 91 72 9 Etna Creek 1 n/a West Side NonGranitic West Side Granitic West Side Granitic 21.1 43 Scott River Shackleford Creek 25.6 8.2 90 72 16 Grouse Creek Patterson Creek 1 South East West Side NonGranitic 32.6 6.7 78 78 31.1 7.9 81 73 4 n/a West Side NonGranitic 30.5 9.2 82 67 31 Scott River Patterson Creek 30.5 10.2 82 62 27 Moffett Creek 5 31.9 12.8 79 48 19 Kidder Creek 2 East Side West Side NonGranitic 31.9 13.1 80 46 25 3 12.1 58 52 49.9 9.4 30 66 18 Kidder Creek 1 East Side West Side NonGranitic West Side NonGranitic 41.1 45 Moffett Creek Shackleford Creek 40.6 14.8 59 36 40 Scott River 3 n/a 42.6 14.7 53 37 26 Moffett Creek 4 East Side 46.7 15.0 41 35 38 Scott River 1 47.5 16.0 38 28 22 Kidder Creek 5 n/a West Side NonGranitic 59.8 17.0 0 21 39 Scott River 2 n/a 58.8 20.4 0 0 0-25% 25-50% 51-75% 76-100% 37 50 10 44 49 32 41 Reach Percent <85mm Province West Side NonGranitic 35 Stream 9.5 mm 0.85 mm Estimated % Estimated % survival survival Percent < 9.5mm 2 1 4 1 2 1 3 Colors indicates estimated survival of salmon embryos in relationship to percent fines 30 Figure 17. Results of embryo survival model with survival to emergence in the Scott River watershed. 31 Quantify Gravel Mobility Rates Overall Approach Our approach to estimating sediment transport was tailored to the scope of the watershed assessment and the life history requirements of the focal species. Rather than attempt to obtain “absolute” sediment transport data, which is notoriously stochastic in time and space, we took a relativistic approach. This approach utilizes variables that intrinsically control the transport and storage of sediment in rivers and streams (Parker et al. 1998) while allowing intra-comparisons amongst study reaches. Three basic methods were employed using collected field data (slope, morphology, sediment sizes, etc). Further we employed a regional regression for estimated streamflow based on instrinsic basin properties to assess streamflows with the basin consistently. We determined the potential transport capacity of the existing sediment size distribution as well as for an ideal “Coho mix” to understand which reaches have a strong likelihood of transporting or storing existing and potentially augmented gravels. We also utilized a sediment supply index that relates predicted to actual gravel sizes to understand which reaches are supply or transport limited. Lastly, we performed an annual assessment of potential redd scour at appropriate study reaches to understand survival of embryos. At-a-Station Sediment and Transport Capacity Analysis Gravel mobility was assessed using field based sampling and at-a-station empirical estimates of relative sediment supply and transport capacity. Cross section, channel slope, peak discharge estimates and grain size data were used in the Bedload Assessment for Gravel-bed Streams (BAGS) program (Pitlick et al. 2009) to estimate potential sediment transport capacities in the study reaches. For this analysis, the Parker (1990) and Wilcock and Crowe (2003) sediment transport relationships for bedload transport in gravel-bed rivers were utilized. Two discharges were utilized for all simulations, the 2- and 100-year flows. Estimation of Peak Runoff By determining peak runoff, we assessed sediment transport basin-wide. Peak runoff was determined for the 2, 5, 10, 25, 50, and 100-year recurrence intervals at each study site using regression equations developed for the State of California (Waananen and Crippen 1977; Table 8). The regression equations require drainage area, mean annual precipitation (MAP), and an altitude index. The drainage area for each site was digitized in ArcGISTM manually using data from 7.5 min. USGS topographic maps. Mean annual precipitation was derived from from the 2009 PRISM rainfall data set for California. For each drainage area, the area of each isohyetal was measured and a weighted MAP value was determined. It is noted that the regression equations used in this study can have as much as 50% error (Mann et al. 2004). Typically, this error leads to underestimated peak discharges and decreases with recurrence interval (Mann et al. 2004). Because our primary use of these discharges is to estimate sediment transport capacity, we accept this method as a means to rapidly assess study reaches within the Scott River basin. 32 Results of Estimation of Peak Runoff Table 8. Calculated peak runoff for study reaches within the Scott River Watershed, California. Stream Reach Province Canyon Creek Canyon Creek Canyon Creek Crater Creek East Fork Scott River East Fork Scott River East Fork Scott River East Fork Scott River Etna Creek Etna Creek Etna Creek French Creek French Creek French Creek French Creek Grouse Creek Grouse Creek Kidder Creek Kidder Creek Kidder Creek Kidder Creek Kidder Creek Moffett Creek Moffett Creek Moffett Creek Moffett Creek Moffett Creek Moffett Creek Moffett Creek Big Slough Patterson Creek Patterson Creek Patterson Creek S. Fork Scott River S. Fork Scott River S. Fork Scott River S. Fork Scott River Scott River Scott River Scott River Scott River 1 2 3 1 1 2 3 4 1 2 3 1 2 3 4 1 2 1 2 3 4 5 1 2 3 4 5 6 7 1 1 2 3 1 2 3 4 1 2 3 4 Canyon Canyon Canyon South East South East South East South East South East West Side Granitic West Side Granitic West Side Granitic West Side Granitic West Side Granitic West Side Granitic West Side Granitic South East South East West Side Non Granitic West Side Non Granitic West Side Non Granitic West Side Non Granitic West Side Non Granitic East Side East Side East Side East Side East Side East Side East Side West Side Non Granitic West Side Non Granitic West Side Non Granitic West Side Non Granitic South West South West South West South West Valley Valley Valley Valley Avg. Mean Altitude Annual Area - A Precipitation - Index - H 3 (sq mi) P (in) (10 ft) Q2 (cfs) 25 64 3.9 1,359 20 68 4.44 1,105 NA NA NA NA 3 50 6 139 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 27 47 3.9 1,096 20 52 4.4 895 NA NA NA NA 31 32 4.62 814 22 36 4.7 663 13 37 4.88 420 4 39 5.26 145 6 51 4.94 279 NA NA NA NA 29 49 3.915 1,218 27 51 3.97 1,185 NA NA NA NA 23 55 4.26 1,046 17 61 4.58 868 NA NA NA NA NA NA NA NA 70 29 3.635 1,742 59 30 3.815 1,514 32 33 3.97 914 NA NA NA NA NA NA NA NA NA NA NA NA 13 42 3.855 534 12 44 4.18 473 NA NA NA NA NA NA NA NA 27 43 4.74 939 18 45 5.08 650 4 52 5.9 192 674 34 3.19 16,365 661 34 3.235 15,943 599 33 3.265 14,202 338 32 3.36 8,282 Q5 (cfs) Q10 (cfs) Q25 (cfs) Q50 (cfs) Q100 (cfs) 2,412 1,998 NA 265 NA NA NA NA 1,931 1,607 NA 1,450 1,190 761 269 514 NA 2,147 2,095 NA 1,872 1,574 NA NA 2,985 2,615 1,599 NA NA NA 943 846 NA NA 1,690 1,185 362 27,071 26,421 23,572 13,871 3,487 2,928 NA 402 NA NA NA NA 2,773 2,341 NA 2,092 1,728 1,115 402 765 NA 3,085 3,016 NA 2,721 2,311 NA NA 4,181 3,685 2,279 NA NA NA 1,360 1,230 NA NA 2,459 1,743 548 36,788 35,951 32,112 19,045 4,963 4,232 NA 609 NA NA NA NA 3,932 3,371 NA 3,000 2,495 1,624 597 1,128 NA 4,374 4,286 NA 3,904 3,353 NA NA 5,801 5,147 3,219 NA NA NA 1,936 1,770 NA NA 3,551 2,545 826 49,324 48,278 43,194 25,837 6,840 5,907 NA 867 NA NA NA NA 5,384 4,676 NA 4,139 3,455 2,259 837 1,580 NA 5,998 5,888 NA 5,405 4,684 NA NA 7,816 6,971 4,382 NA NA NA 2,642 2,436 NA NA 4,939 3,565 1,176 65,890 64,571 57,789 34,649 8,563 7,476 NA 1,121 NA NA NA NA 6,720 5,898 NA 5,216 4,365 2,863 1,067 2,011 NA 7,492 7,365 NA 6,804 5,937 NA NA 9,653 8,645 5,457 NA NA NA 3,291 3,055 NA NA 6,254 4,543 1,519 80,650 79,122 70,846 42,571 Results from the At-a-Station Sediment and Transport Capacity Analysis Results were normalized by the average bedload transport among all reaches to help with crosscomparisons between study sites (Figure 18 and Figure 19). 33 Scott River: Reach 4 Scott River: Reach 5 Shackleford Creek: Reach 1 Shackleford Creek: Reach 2 Shackleford Creek: Reach 3 Shackleford Creek: Reach 4 Tompkins Creek: Reach 1 Tompkins Creek: Reach 2 Scott River: Reach 3 Scott River: Reach 4 Scott River: Reach 5 Shackleford Creek: Reach 1 Shackleford Creek: Reach 2 Shackleford Creek: Reach 3 Shackleford Creek: Reach 4 Tompkins Creek: Reach 1 Tompkins Creek: Reach 2 Patterson Creek: Reach 2 S. Fork Scott River: Reach 2 S. Fork Scott River: Reach 3 S. Fork Scott River: Reach 4 Scott River: Reach 1 Scott River: Reach 2 Scott River: Reach 3 Scott River: Reach 2 Scott River: Reach 1 S. Fork Scott River: Reach 4 S. Fork Scott River: Reach 3 S. Fork Scott River: Reach 2 Patterson Creek: Reach 1 Moffett Creek: Reach 5 Moffett Creek: Reach 4 Moffett Creek: Reach 3 Kidder Creek: Reach 4 Grouse Creek: Reach 1 French Creek: Reach 4 French Creek: Reach 3 French Creek: Reach 2 French Creek: Reach 1 Etna Creek: Reach 2 Etna Creek: Reach 1 Crater Creek: Reach 1 Canyon Creek: Reach 2 Canyon Creek: Reach 1 34 Patterson Creek: Reach 2 Patterson Creek: Reach 1 Moffett Creek: Reach 5 Moffett Creek: Reach 4 Moffett Creek: Reach 3 Kidder Creek: Reach 4 Grouse Creek: Reach 1 French Creek: Reach 4 Q100 - Existing Pebble Distribution Transport Rate 6.0 French Creek: Reach 3 French Creek: Reach 2 French Creek: Reach 1 Etna Creek: Reach 2 Etna Creek: Reach 1 Crater Creek: Reach 1 Canyon Creek: Reach 2 Canyon Creek: Reach 1 4.0 3.0 2.0 1.0 Normalized Transport Capacity 4.5 4.0 3.5 3.0 2.5 2.0 1.5 1.0 Normalized Transport Capacity Q2 - Existing pebble Distribution Transport Rate 6.0 5.5 5.0 0.5 0.0 5.0 0.0 Figure 18. Normalized average bedload transport among study reaches of the Scott River Watershed, California. Interpretation of Figure 19 is that study reaches with high transport capacity will likely evacuate spawning gravels very rapidly at bankfull flows. Study reaches with low transport capacities will have a higher probability of maintaining spawning gravels. An ideal coho mixture of gravel was determined based on available fork length data. We used this mixture to rank reaches based on their potential to maintain gravels needed for coho spawning. This gravel mixture was evaluated for the 2 year event (Figure 19). We used this mixture to rank reaches based on their potential to maintain gravels needed for coho spawning. The ranking will be applied to potential sites that meet criteria for gravel augmentation as discussed below. 5.0 Q2 - Coho Gravel Mixture Transport Rate Normalized Transport Capacity 4.0 3.0 2.0 1.0 0.0 Tompkins Creek: Reach 2 Tompkins Creek: Reach 1 Shackleford Creek: Reach 4 Shackleford Creek: Reach 3 Shackleford Creek: Reach 2 Shackleford Creek: Reach 1 Scott River: Reach 5 Scott River: Reach 4 Scott River: Reach 3 Scott River: Reach 2 Scott River: Reach 1 S. Fork Scott River: Reach 4 S. Fork Scott River: Reach 3 S. Fork Scott River: Reach 2 Patterson Creek: Reach 2 Patterson Creek: Reach 1 Moffett Creek: Reach 5 Moffett Creek: Reach 4 Moffett Creek: Reach 3 Kidder Creek: Reach 4 Grouse Creek: Reach 1 French Creek: Reach 4 French Creek: Reach 3 French Creek: Reach 2 French Creek: Reach 1 Etna Creek: Reach 2 Etna Creek: Reach 1 Crater Creek: Reach 1 Canyon Creek: Reach 2 Canyon Creek: Reach 1 Figure 19. Estimated transport rate for coho-appropriate spawning gravel sizes per study reach. Sediment Supply Index (SSI) Determining the actual sediment supply at any given space and time in a river is difficult to achieve with confidence as processes governing sediment transport are inevitably stochastic. To assess the sediment supply of a study reach relative to all study sites we used a sediment supply index based on the competent median particle size (D50) relative to the measured particle size for bankfull flows (D50_C assumed to be Q2) scaled by the contributing drainage area. The data was then normalized by the average drainage area to further illustrate relative supply. This approach has been used previously by Buffington and Montgomery (1999) and Buffington et al. (2004) but without drainage area scaling. The index takes the form: SSI = ((D50C/ D50) • Drainage area)/ Average Drainage Area 35 Equilibrium bedload transport is typically represented as power function of excess shear stress so it follows that it is also a power function of the competent and observed median grain sizes. In this fashion surrogates for the applied and critical shear stresses are the observed and competent grain sizes (Buffington and Montgomery 1999). The SSI ratio is a measure of sediment supply incorporating sediment grain sizes observed versus what is theoretically stable at bankfull that is also scaled and normalized by drainage area. When actual particle sizes are smaller than predicted for equilibrium the first ratio will be greater than 1, indicating that sediment in excess of that needed for equilibrium may persist at the study reach. A larger drainage area would “scale” this ratio higher while a smaller one would reduce it. Conversely, when the actual particle sizes are larger than predicted for equilibrium the first ratio will be less than 1, indicating that sediment in excess of that needed for equilibrium would not persist at the study reach. Results from the Sediment Supply Index Our analysis indicates that the lower gradient reaches of the Scott River typically have higher sediment supply relative to the size of the drainage area (higher SSI’s). This is consistent with our understanding of watershed sediment dynamics (Figure 20). The excess of supply relative to equilibrium conditions however, can be attributed to either intrinsic properties of the watershed or study reach or from physical modifications to the stream geometry that prohibits particle sorting. 7.5 7.0 6.5 Sediment Supply Index (SSI) 6.0 5.5 5.0 4.5 4.0 3.5 3.0 2.5 2.0 1.5 1.0 0.5 Figure 20. Sediment Supply Index for study reaches of Scott River Watershed, California. 36 Tompkins Creek 2 Tompkins Creek 1 Shackleford Creek 4 Shackleford Creek 3 Shackleford Creek 2 Scott River 5 Shackleford Creek 1 Scott River 4 Scott River 3 Scott River 2 Scott River 1 S. Fork Scott River 4 S. Fork Scott River 3 Patterson Creek 2 S. Fork Scott River 2 Moffett Creek 5 Patterson Creek 1 Moffett Creek 4 Kidder Creek 5 Moffett Creek 3 Kidder Creek 3 Kidder Creek 2 Kidder Creek 1 French Creek 4 Grouse Creek 1 French Creek 3 French Creek 2 Etna Creek 2 French Creek 1 Etna Creek 1 Crater Creek 1 Canyon Creek 2 Canyon Creek 1 0.0 Risk of Redd Scour Analysis We classified the risk of redd scour at selected spawning grounds using published data on hydraulic and sediment transport conditions known to impact salmonid redds (May et al. 2007). We determined the times salmonids spawn in the basin and identified when salmonid eggs are incubating with the range of water depths expected. Using flow data and sediment transport scour core data, we determined the range of flows that may be expected during the egg incubation period and determined the thresholds for redd scouring in each of the study reaches. We developed a map delineating zones of possible redd scour risk. Depth of Scour Analysis For this aspect of the study we wanted to relate maximum annual scour depths with depths of egg burial depths for coho salmon. Contemporary thinking is that egg burial depths coincide with typical disturbance depths from sediment mobilization (Montgomery et al. 1996; Buffington et al. 2004). For example, DeVries (2002) found annual disturbance depths to be 1.5 times the D90. Changes in sediment supply or discharge can alter this regime and increase the risk of redd scour to salmonids. For spawning and incubation timing, we used a combination of information from carcass and redd surveys performed on the Scott River (Maurer 2002; Quigley 2005) and overall timing for coho of the Pacific Southwest, including the Klamath Watershed (Hassler 1987; Weitkamp et al. 1995). For range of depths for expected incubation, we used fork length data from coho salmon carcass surveys performed on the Scott River (e.g. Quigley 2005) and the calculation of nest depth as a function of female coho size from van den Berghe and Gross (1984). From those data, we estimated redd depth relationship to female fork length as: y = -10.44 + 0.411x Where y = Redd Depth x = Female Length A sliding bead monitor with a machined end point was used to measure in situ scour depths (Nawa and Frissel 1993) through the 2010 water year (Figure 21). Installations occurred in September and October 2009 during low flow and/or dry conditions. Because we had to move the surface layer in some cases to install the scour chains, we added the median particle size to the total scour depth. This is because subsurface scour of the beads cannot occur unless the surface is mobilized. 37 Figure 21. An example of the Scour chains used to determine sediment mobility. Results from Risk of Redd Scour Analysis Timing Coho have been observed spawning between 1 November and 15 January. The amount of time it takes for embryos to hatch and emerge is strongly related to temperature and to a lesser extent oxygen (see Sandercock 1991). In the United States, coho embryos may take anywhere from 3856 days to hatch with another 21 to 40 days further to hatch. This suggests embryos should be incubating in the gravel between 1 November and 15 April with a conservative estimate of all fry emerging by 15 May (Figure 22). Therefore, scour chains were installed and operated from early October 2009 to the first week of July 2010. 38 Month Fall-Run Chinook January February March April May June July August Adult Migration and Holding September October October 15 - December 31 October 15 - March 15 Fry Emergence Coho October 15 - March 15 January 1 - April 15 January February March April May June July August Adult Migration and Holding Spawning Embryo Incubation Fry Emergence December August 1 - December 31 Spawning Embryo Incubation November September October November December September 1 - December 31 Nov 1 - Jan15 November 1 - January 15 November 1 - April 15 November 1 - April 15 February 1 - May 15 adapted from Trinity River Salmonid Life-History Table available at http://www.trrp.net/TrinityRiver/fishresources.htm; Trinity River Flow Evaluation - Final Report. 1999. A Report to the Secretary, U.S. Department of the Interior, Washington, D.C. prepared by the U.S. Fish and Wildlife Service, Arcata Fish and Wildlife Office, Arcata, CA and the Hoopa Valley Tribe, Hoopa, CA. 513 pages; Maurer (2002) and Quigley (2005) Figure 22. Estimated timing of Chinook and coho salmon spawning and incubation for the Scott River, CA. 39 Fish Size and Redd Depths Female coho salmon in the Scott River have ranged from 55 – 85 cm FL (Figure 23). This suggests redd depths are from 13 – 24 cm (Table 9). Therefore, we assume scour that exceeds a depth of 13 mm from 1 November through 15 May is potentially detrimental to Scott River coho redds (Figure 24). Note: Measurements of the redd “pit” (egg pocket) were performed on completed redds during the coho spawning surveys of 2004-05 (Quigley 2005). An average excavation depth of 19.5 cm was measured on all tributaries on a total of over 530 redds. These empirical values correlate well with the values derived from the FL analysis. Female coho forklength 35% 30% Percent observed 25% 20% 15% 10% 5% 0% 52 56 60 64 68 72 76 80 84 88 92 96 FL (cm) Figure 23. Length frequency of female coho salmon observed during carcass surveys of the Scott River, California. Data from SQRCD surveys. Table 9. Estimated redd depths for coho salmon length frequencies observed in the Scott River, California. As a Redd depth By number proportion of (cm) of females population 12.6 14.2 15.9 17.5 19.2 20.8 22.4 24.1 6 6 63 81 103 48 8 1 2% 2% 20% 26% 33% 15% 3% 0% 40 100 35% redd depths 30% Percent of observed 25% 20% 15% 10% 5% 0% 10 13 14 16 18 19 21 22 24 26 Redd depths (cm) Figure 24. Estimated redd depths for coho salmon length frequencies for Scott River, California. Scour Cores An attempt was made to insert a scour monitor at every study site, but large boulders and the presence of shallow bedrock limited the study to selected reaches where the scour monitors could actually be inserted. A total of 23 scour chains were installed throughout the Scott River Watershed October 2009 (Table 10). A total of 15 chains were recovered between 12 and 13 July 2010. Table 10. Information on scour chain stations installed throughout the Scott River Watershed October 2009 and recovered July 2010 Id Stream 4 Crater Creek Reach1 Feature Scour Depth (cm) Deposition (cm) Scour beads 4.8 0 Y X 9 Etna Creek 1 Scour beads NR NR 41.4703121390 -122.8574434798 12 French Creek 1 Scour beads 7.2 8 41.3957368675 -122.8713009318 13 French Creek 2 Scour beads NR NR 41.3860021305 -122.8754536723 16 Grouse Creek 1 Scour beads 8.4 0 41.3167458394 -122.6985592305 25 Moffett Creek 3 Scour beads 0 0 41.6334397589 -122.7403538394 26 Moffett Creek 4 Scour beads 2.4 3 41.5922933271 -122.7270788565 27 Moffett Creek 5 Scour beads 0 0 41.5799179475 -122.7087572847 31 Patterson Creek 1 Scour beads 0 3 41.5058487986 -122.8980437702 32 Patterson Creek 2 Scour beads 2.4 10 41.5093759055 -122.9328257132 35 S. Fork Scott River 2 Scour beads 2.4 0 41.2890999271 -122.8389962684 38 Scott River 1 Scour beads 10.8 8 41.6358686409 -123.0785131343 38 Scott River 1 Scour beads NR NR 41.6358764545 -123.0784060841 38 Scott River 1 Scour beads NR NR 41.6406481014 -123.0150965569 38 Scott River 1 Scour beads NR NR 41.6406235930 -123.0151035750 39 Scott River 2 Scour beads NR NR 41.5676577972 -122.8464386444 39 Scott River 2 Scour beads 21.6 8 41.6336828025 -122.9602726435 39 Scott River 2 Scour beads NR NR 41.6336773146 -122.9602690012 40 Scott River 3 Scour beads 0 0 41.4756476383 -122.8492228340 41 Scott River 4 Scour beads 6 0 41.4213235496 -122.8448798583 42 Scott River 5 Scour beads NR NR 41.3439707135 -122.8251360287 43 Shackleford Creek 1 Scour beads 3.6 13 41.6216413582 -122.9655781026 44 Shackleford Creek 2 Scour beads 2.4 33 41.5933019809 -122.9910726449 41 Only one monitoring site – on the mainstem Scott River Reach 2 – had scour that exceeded the upper boundary for Coho redds during the 2009-2010 spawning and incubation period. It is difficult to extrapolate meaning based on results from one year of monitoring. Considering that the effort for scour chain installation is moderate, future monitoring should be performed through a variety of water year types. Sampling of Woody Material We took length and diameter breast height (DBH) estimates on a subset of woody material observed during surveys of the Scott River Watershed (material with diameter greater than 3 inches). We then estimated the volume of wood per piece by the following formula: Cubic foot = (DBH/2)2 • 3.1415 • Height • 0.7 Board foot = (DBH/2)2 • 3.1415 • Height • 0.7 • 12 Results from Woody Material Sampling A total of 28 wood pieces were measure for volume estimation. Average material length was 30 ft (9.1m) and width 1.3 ft (Table 11). For the Scott River mean wood volume for individual pieces was 53 ft3 (min 1.03; Max 209.4) (1.5 m3). The number of woody pieces observed within the study reaches ranged from 0 to 3.3 per 100 m (328 ft). We estimated that the entire Scott River watershed averaged 0.88 pieces per 100 m (Figure 25). Over half of the documented wood pieces were located in three reaches: Tompkins Creek 1 (n=8), Tompkins Creek 2 (n=5) and Patterson Creek 2 (n =5). Woody material was documented in only eight of the thirty three reaches sampled. Table 11. Estimation of LWM from sampled reaches of the Scott River watershed. ID Stream Reach Count DBH (ft) 4 15 15 16 18 18 18 18 18 32 32 32 37 49 49 49 49 49 49 49 49 50 50 50 50 50 Crater Creek French Creek French Creek Grouse Creek Kidder Creek Kidder Creek Kidder Creek Kidder Creek Kidder Creek Patterson Creek Patterson Creek Patterson Creek S. Fork Scott River Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek Tompkins Creek 1 4 4 1 1 1 1 1 1 2 2 2 4 1 1 1 1 1 1 1 1 2 2 2 2 2 1 1 1 1 1 1 1 1 1 3 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0.4 2.0 0.6 4.0 1.7 1.2 2.0 1.0 0.7 3.6 2.0 0.7 1.2 1.3 1.5 0.5 0.8 1.0 0.8 2.0 2.0 0.3 1.5 0.3 0.3 0.3 Estimated Length Debris Vol 3 (ft) (ft ) 5 20 10 10 22 26 26 16 18 89 62 35 4 35 60 30 25 12 50 80 20 20 20 30 30 30 0.5 44.0 1.9 88.0 33.6 20.9 57.2 8.8 4.4 209.4 136.3 8.6 3.0 34.2 74.2 4.1 9.5 6.6 19.1 175.9 44.0 1.2 24.7 1.0 1.0 1.0 Estimated Debris Volume (board ft) 5.7 527.8 22.4 1055.5 403.2 250.4 686.1 105.6 52.8 2513.0 1636.1 102.6 35.9 410.5 890.6 49.5 114.5 79.2 229.1 2111.1 527.8 14.7 296.9 12.4 12.4 12.4 42 Photo Comment Yes partially embedded and decomposing in right bank Yes Yes Yes Yes Yes Bedrock section, LWD may not contribut to forced feature Yes Yes Yes double tree, embedded rootwad, combined DBH embedded rootwad with tree embedded rootwad and main trunk overhanging log jam Three logs stack, DBH represents combined diameters Transverse jam, good feature Alder Figure 25. Density (percent surface area coverage) of woody material (>3 in diameter) within study reaches of the Scott River 43 Identify Quantity and Quality of Potential Spawning Habitat Watershed Wide Habitat Model Description and Output Using an integration of the data analysis described above, we have developed the following information evaluation process used to identify and prioritize watershed reaches for potential gravel augmentation and structural enhancement sites in the Scott River Watershed (Charts 1; Figure 26). The approach is described here, and then applied in the next section to develop a series of sites and recommended actions. Chart 1. Prioritization of Coho Spawning Habitat What is the time that stream sections are open to adult fish during spawning season? Data missing ~ 25% ~ 50% Low Priority A ~ 75 – 100% Medium Priority High Priority Evaluate and if appropriate fix Evaluate and if appropriate fix No Yes Is the barrier natural? Is there a physical barrier to fish passage? Yes Implement additional monitoring and reassess (e.g. >4 or sediment torrent overwhelms channel) No No Is the stream gradient appropriate for spawning? < 1% Reach inappropriate; No further evaluation needed Yes 1 – 3% Medium Priority Low Priority D What is the dominant substrate? Bedrock Yes C 3 – 4% High Priority Yes Generally meets spawning requirements; go to Chart 2 B No D50 > 256 mm No Yes D50 < 8 mm No Figure 26. Prioritization of coho salmon spawning habitat. Habitat Accessibility (A and B) In order for streams to be considered for spawning habitat, they must be physically accessible to fish. That is, they must open (flow) at the appropriate time for target salmonids to use them; habitat must connect to waterways further downstream at times when adults are migrating upstream and during the spawning season. Secondly, fish must be able to physically surmount obstacles within the watershed during migration to potential habitat and remain healthy enough to complete their life cycle. A. Timing of Stream Opening Described in detail above, we used weir counts and redd and carcass survey reports to identify adult timing of coho and Chinook salmon. We then used flow data for our primary stream 44 reaches along with field surveys to identify when each of these reaches became connected to the lower system (Chart 1). B. Physical Barriers For this evaluation, we used data from Calfish, a collaborative website that provides access to anadromous fish datasets (e.g., anadromous abundance, barriers, and restoration Projects) to identify natural and artificial barriers to adult salmonids in the Scott River watershed: http://www.calfish.org/DataandMaps/tabid/88/Default.aspx We then ground-truthed identified sites. Our assumption was that for successful fish passage to occur at a given site, the ratio of drop height to pool depth is greater than or equal to 1:1.5 or a minimum of 0.6 m (2 ft) depth (Robison et al. 1999). We used estimated maximum jump height Chinook salmon (3.67 m), coho salmon and steelhead (1.47 m) (Meixler et al. 2009). C. Stream Gradient and Salmonid Spawning Habitat It is generally accepted that Pacific salmon spawn and rear in stream reaches with a gradient (slope) less than 4-5% (Lunetta et al. 1997). We used the gradient preferences (Table 12) set forth by Montgomery et al. (1999) to classify stream reaches for spawning salmonids. Montgomery and Buffington (1997) proposed a geomorphically based channel classification system and identified five alluvial channel types based on slope, substrate, roughness elements, confinement, and pool spacing including: cascade (8.0 – 30.0% slope) step-pool (3.0 – 8.0% slope) plane-bed (1.0-4.0% slope) pool-riffle (0.1-2% slope), and dune-ripple/regime (<0.1% slope). According to Roni et al. (1999), this channel-classification scheme allows for adjustment of channel type due to morphological influences of large wood material and other elements and has been used to define habitat use for juvenile and adult Pacific salmon (Inuoue et al 1997; Lunetta et al. 1997). For example, spawning coho and Chinook salmon densities are generally low in plane-bed channels, highest in pool-riffle and forced-pool-riffle channels, and virtually absent in steeper channels (Table 13) (Buffington et al. 1999). Pool-riffle and forced-pool-riffle channels also appear to represent areas of high-quality rearing habitat for juvenile salmonids (Inoue et al. 1997; Lunetta et al. 1997). Stream reaches of greater than 4% slope are generally not utilized by Pacific salmon for spawning because of the reaches’ high bed load transport rate, deep scour, and coarse substrate (Buffington et al. 1999). Initially, stream reaches with slopes less than 4% can be identified using GIS technology or topographic maps and available stream survey data 45 (Lunetta et al. 1997; Roni et al. 1999). However, channel types identified with GIS technology can differ from those actually present in the field (Lunetta et al. 1997; Montgomery and Buffington 1997). Therefore, it is important that 1:24,000- or larger-scale maps are used to determine potential channel type and a fine-scale (30m or less) digital elevation model be used to calculate slopes. Further, slope and channel type should be confirmed by site visits in a representative number of reaches or with existing habitat surveys (Roni et al. 1999). Table 12. Relative priority of channel gradient for spawning by Chinook and coho salmon (Montgomery et al. 1999). Species Chinook Coho Gradient <0.01 0.01-0.030.03-0.04 >0.04 High Low None None Medium High Low None Table 13. Relative use of four primary stream habitats by Chinook and coho salmon (Buffington et al. 1999). Species Chinook Coho step-pool None Very Low pool-riffle High Medium forced poolriffle High High plane bed None Low D. Evaluate Dominant Substrate Appropriateness for Spawning We assessed gravel quality to determine how well the particle (or sediment) size distributions of existing substrates compare to species-specific requirements for substrate size. In general, spawning females excavate gravel to create a substrate bed depression, but not all material needs to be mobilized, just ample amounts to construct the redd. Spawning will not be successful if adequate amounts of gravel-sized material cannot be mobilized. In salmonids, fish size is directly proportional to maximum movable substrate size, and can be used to effectively determine upper, species-specific size limit criteria for suitable spawning gravels. Kondolf (2000) describes a method for determining appropriate spawning substrate size of a population whereby the maximum movable substrate size for spawning female salmonids was defined as 10% of the average female’s length (Figure 27). We used sex and length data collected from post-spawn coho salmon in the Scott River watershed (unpublished data provided by USFS) to calculate the average female size, and used 10% of the average female’s length as the value to define the maximum movable material size for this population. These data were then compared against existing substrate conditions to determine habitat suitability indices. Specifically, substrate D50 and D84 were used to evaluate the suitability of existing spawning habitat and identify the potential for restoration in different mainstem and tributary reaches throughout the watershed. 46 Figure 27. Median diameter (D50) of spawning gravel plotted against body length of a spawning salmonid. Solid squares denote samples from redds; open triangles are ‘‘unspawned gravels,’’ which are potential spawning gravels sampled from the undisturbed bed near redds (in Kondolf 2000 as modified from Kondolf and Wolman 1993). Gradient and substrate size provided a useful filter for differentiating potential coho spawning reaches from low-potential sites throughout the Scott River Watershed (Figure 28). The model did not perform well where we did not account for the ecological boundaries (see Cadenasso et al. 2003) between various reaches. This can be observed, especially in the high-gradient Tompkins and Canyon creeks, where we did not survey the creek deltas at their confluences with the Scott River proper. South Fork Scott River, Reach 2 also indicated that D50 substrate was too large for spawning (D50 = 99 mm). We assume that our sampling may not have accounted for substrate segregation patterns that might provide pockets of appropriate spawning habitat. 47 Figure 28. Predicted potential spawning reaches using substrate size and estimated reach gradient. Coho salmon redds identified during three years of surveys are overlaid. Black indicates no physical data collected. 48 Initial Screening of Sites Using Chart 1, 14 sites were screened from the total data set meeting requirements for fish passage, gradient, channel morphology, and substrate (Table 14) Table 14. Study reaches that met initial screening criteria in Chart 1. Reach ID Stream 43 Shackleford Creek 40 Scott River 41 Scott River 12 French Creek 31 Patterson Creek 13 French Creek 9 Etna Creek 42 Scott River 4 Crater Creek 32 Patterson Creek 44 Shackleford Creek 35 S. Fork Scott River 18 Kidder Creek 19 Kidder Creek Reach 1 3 4 1 1 2 1 5 1 2 2 2 1 2 Enhancement Rank 1 2 3 4 5 6 7 8 9 10 11 12 13 14 Classify Enhancement Potential (Chart 2) Once the coho spawning sites have been prioritized the enhancement potential of each site can be further investigated. Chart 2 (Figure 29) continued to utilize the rigorous approach described above to reveal the enhancement potential at each prioritized reach based on fine sediment and pool ratios. This approach will provide for the greatest likelihood of success with potential projects and is integrated into the social science prioritization developed by the SQRCD (see below) to arrive at a refined list of sites with a high potential for successful enhancement. 49 Figure 29. Classification process of enhancement potential. E. Fine sediment within the spawning substrate For successful incubation, gravel must be sufficiently free of fine sediment so that the flow of water through the gravel is adequate to bring dissolved oxygen (DO) to eggs and carry off metabolic wastes (see discussions in Chevalier et al. 1984 and Groot and Margolis 1991) and fry must be able to emerge from the substrate. 50 Figure 30. Percent fines in the Scott River watershed. F. Pool Ratios within Appropriate Reaches Other channel types of less that 4% slope represent important or potentially important spawning and rearing areas for salmon but may lack some key roughness elements (e.g. large wood material, boulders, etc.) and adequate pool frequency to support high juvenile and adult salmon densities (Figure 31; Montgomery and Buffington 1997; Montgomery et al. 1999). 51 Coho 250 Redds/km 200 150 100 50 0 0 5 10 15 20 25 30 Pool spacing (CW/pool) Figure 31. Regression model for coho spawning density as it relates to pool spacing (Montgomery et al. 1999). Figure 32. Pool ratio in the Scott River watershed (Channel width/pool). 52 G. Potential enhancement alternatives for candidate reaches According to Roni et al. (1999), the delineation of channel types based on slope allows identification of potentially important and vulnerable habitats in the absence of complete or accurate salmon distribution or habitat data. This process will also identify degraded stream reaches, such as those lacking key roughness elements, and stream reaches with a high potential for restoration as high-quality salmon habitat (Roni et al. 1999). Classification of Impacted Habitat and Potential Enhancement Table 15. Classification of impacted habitat and potential rehabilitation action. Symptom Insufficient sediment Description Example Potential Rehabilitation Action Sediment required for redd Reach is too coarse for Gravel Augmentation construction is lacking and limiting slope and landscape spawning in a reach that position otherwise meets spawning requirements. Insufficient topographic diversity Morphologic units needed for Coho lifecycle are lacking in a reach that otherwise meets morphologic requirements Lack of pools, LWD, riffles Gravel Augmentation; Instream Structure Insufficient Sediment Sorting Overabundance of fine sediment Reach is too fine for slope and landscape position Instream Structure Recommended Actions We used the prioritization framework for Scott River coho salmon (Charts 1 and 2) to: identify surveyed reaches that met the general requirements for coho spawning; identify which, if any, of those identified in step 1 demonstrated physical properties that were less than optimal for spawning and incubation; We then followed the process (see Figure 26 and Figure 29) to identify the most beneficial locations for spawning habitat restoration using the techniques of gravel augmentation and/or structural enhancement. Model Results Ten (10) reaches within the Scott River watershed were identified as meeting the general requirements for coho spawning habitat but demonstrating physical properties that were less than 53 optimal for spawning and incubation and having potential to benefit from gravel augmentation, structural enhancement or a combination of the two. South Fork Scott River, Reach 2 Candidate for Gravel and Structure Placement - Rank: High; High; High Reach 2 of the South Fork Scott River was identified as a high priority candidate for gravel augmentation and secondarily structural enhancement due its moderate potential for sediment transport, above-threshold size (D50 = 99mm) surface substrate and lack of woody debris (0% detected). Designation as a high priority site is due to two main factors: (1) the reach is consistently opening during Coho spawning migration; and (2) has a preferred Coho stream gradient (1.47%). Stream morphologies in the reach include riffle-pool (ratio 3.1) and step-pool habitat considered moderately and highly preferred, respectively, spawning habitat for Coho salmon (Montgomery et al. 1999). From 2001-2007, the Siskiyou RCD confirmed coho salmon spawning activity in this reach. Under present conditions the model predicts embryo survival and emergence of fry in the reach should exceed 75% due to the relatively low infiltration of fine substrate in subsurface gravel. Shackleford Creek Reach 2 Gravel and structural enhancement- Rank: Medium; High; High Reach 2 of Shackleford Creek was identified as a moderate to high priority reach for gravel augmentation because of its moderate probability of being open during the entire spawning season, high quality gradient range for coho spawning selection, and because its D50 is slightly larger than that identified by the model as optimum for Scott River coho. The model also predicts high embryo survival with present levels of fine sediment. Therefore, the model suggests that increasing the volume of gravel material within the size preferences for coho salmon would increase spawning success. Coho spawning has been documented in this reach. French Creek2 Structural enhancement; secondary: gravel augmentation- Rank: High; High; High Reach 2 of French Creek was identified as a high priority reach for structural enhancement because it has a high probability of being open during the spawning season, is within the high quality range for gradient used by coho, falls well within D50 range for coho lengths within the Scott River but has elevated fine sediment that the model predicts would reduce embryo survival (72% survival). The reach has a low volume of woody material presently in the channel. Since we predict relatively low transport of coho-sized spawning material, this reach could also benefit from gravel augmentation to reduce the percentage of fine sediment relative to coarser particle sizes. Coho spawning has been documented in this reach. Scott River 4 54 Structural enhancement; secondary: gavel augmentation- Rank: High; High; High Reach 4 of the Scott River was identified as high priority for structural enhancement because it has a high possibility of being open during the spawning season, is within high quality gradient range for coho spawning use and the existing D50 is well within the range predicted appropriate by the coho length model. The embryo model predicts the reach is moderately impaired due to fine sediment and the reach presently has little wood structure (none observed during survey). Our modeling predicts relatively low transport rates for gravel of appropriate size for coho spawning, suggesting gravel augmentation could also be used to reduce the percentage of fine sediment relative to coarser particle sizes at the site. Patterson Creek 2 Structural enhancement; secondary: gravel augmentation- Rank: Medium; High; High Reach 2 of Patterson Creek was identified as a moderately high priority reach for structural enhancement because it has a moderate possibility of being open during the spawning season but is located within the high quality gradient range for coho spawning preference and the existing D50 range is well within the range predicted appropriate for coho spawning. The embryo model predicts the reach is moderately impaired due to fine sediment and the reach presently has little wood structure (none observed during survey). The sediment transport model predicts moderate transport rates for gravel appropriate for coho spawning suggesting possible benefits from gravel augmentation to reduce the percentage of fine sediment relative to coarser particle sizes if sufficient structure is added to the reach to maintain coarse material. Spawning coho have been documented using this reach. Scott River 3 Structural Enhancement; secondary: gravel augmentation- Rank: High; Medium; Medium Reach 3 of the Scott River was identified as a high to moderate priority reach for structural enhancement because it has a high probability of being open during the spawning season, is located within the moderate quality gradient range for coho spawning preference and the existing D50 range is well within the range predicted appropriate for coho spawning. The embryo model predicts the reach is moderate to highly impaired due to fine sediment and the reach presently has little wood structure (none observed during survey). The sediment transport model predicts low transport rates for gravel appropriate for coho spawning suggesting possible benefits from gravel augmentation to overwhelm fine sediment. We found no documentation of coho spawning use in this reach over the past 15 years. Etna Creek, Reach 1 Structural enhancement; secondary: gravel augmentation- Rank: Medium; Medium; High Reach 1 of Etna Creek was identified as a moderate priority candidate for structural enhancement due to a moderate probability of being open for the entire spawning season, moderate slope 55 preference by spawning coho salmon and its the existing D50 falling within optimum for spawning coho salmon. Etna Reach 1 is slightly impaired due to elevated fines which could benefit from structural enhancement. Because of its relatively low ranking for coho spawning material mobilization, this reach could also benefit from gravel augmentation to reduce the percentage of fine sediment relative to coarser particle sizes. Kidder Creek2 Structural enhancement; secondary: gravel augmentation- Rank: Medium; Medium; High Reach 2 of Kidder Creek was identified as a moderate to high priority reach for structural enhancement because it has a moderate probability of being open during the spawning season, is located within the moderate quality gradient range for coho spawning preference and the existing D50 range is well within the range predicted appropriate for coho spawning. The embryo model predicts the reach is moderate to highly impaired due to fine sediment and the reach presently has little wood structure (none observed during survey). The sediment transport model predicts little to no sediment transport into this reach and so Reach 2 of Kidder Creek may also be appropriate for gravel augmentation. Coho spawning has been documented in this reach. Patterson Creek 1 Structural enhancement; secondary: gravel augmentation- Rank: Medium; Medium; High Reach 1 of Patterson Creek was identified as a moderate to high priority reach for structural enhancement because it has a moderate probability of being open during the spawning season, is located within the moderate quality gradient range for coho spawning preference and the existing D50 range is well within the range predicted appropriate for coho spawning. The embryo model predicts the reach is moderately impaired due to fine sediment and the reach presently has little wood structure (less than 0.5% coverage). The sediment transport model predicts low transport rates for gravel appropriate for coho spawning relative to other sites suggesting possible benefits from gravel augmentation to reduce the percentage of fine sediment relative to coarser particle sizes. Coho spawning has been documented in this reach. Kidder Creek 1 Structural enhancement; secondary: gravel augmentation- Rank: Medium; Medium; Medium Reach 1 of Kidder Creek was identified as a moderate priority reach for structural enhancement because it has a moderate probability of being open during the spawning season, is located within the moderate quality gradient range for coho spawning preference and the existing D50 range is well within the range predicted appropriate for coho spawning. The embryo model predicts the reach is moderate to highly impaired due to fine sediment. The reach habitat is plain bed with no observed pools within the study reach and no wood structure observed during the survey. Structural enhancement would be a priority for this reach. The sediment transport model predicts little to no sediment transport within this reach and so it may also be appropriate for gravel augmentation. Coho spawning has been documented in this reach. 56 SPAWNING GRAVEL ENHANCEMENT PLAN AND RECOMMENDED ACTIONS Potential Enhancement Tools This section provides descriptions of various techniques that can be applied to each phase of the rehabilitation/enhancement process, depending on site-specific conditions. The techniques, including possible applications, considerations and costs, are described below. In many situations, more than one technique can be used. Because a variety of site conditions will occur and are specific to each potential enhancement site, the conditions require evaluation to identify the most appropriate treatments to be used. Examples of site conditions requiring evaluation include existing and historical channel morphology, riparian vegetation community, salmonid spawning use, adjacent land use, and erosion potential. Other elements to be considered are site access, budget and material availability and an overall cost/benefit analysis. Many of these issues are not particularly suitable for a scientific assessment. We believe these are more appropriately assessed through a watershed stewardship program or stakeholder group to prioritize projects by costs, community interests and accessibility to potential sites. Potential prioritization scheme is discussed below and Table 16 summarizes the potential techniques. Gravel for spawning habitat rehabilitation is typically purchased from floodplain quarries or inchannel mining sources (Kondolf 2000). Ideally, a source exists within the basin, but often gravel may only be available from other basins posing ethical questions pertaining to enhancing one drainage at the expense of another. In California, the cost for each metric ton of concretegrade aggregate can range from USD $7.00 – $20.00 at the mine, plus an additional USD $0.06 – $0.10 km-1 for site transportation (Merz et al. 2006). Cost for in-basin river gravel including triple-washing and transport was USD $22.90 m-3 total. The cost for gravel placement equipment and labor was an additional USD $0.47 m-3 (2% of purchase and transport). Depending on fuel costs and site location, costs can be as high as $45.00 m-3 for placement completion (CDFG, unpublished data; USBR, unpublished data), and can be further influenced by the housing market, state and federal road projects, and even the global economy. As gravel is sold by weight, some volumetric loss may be due to over estimates in mass to volume conversions and loss at storage sites (Merz et al. 2006). 57 Table 16. A summary of salmonid spawning habitat enhancement/ augmentation techniques. Method Success/conditions for use Timing Costs Special consideations Gravel Injection Used where flows are high enough to mobilize material; Bank or drop location with easy access to river channel upstream of where gravel is needed; typically used where a reservoir or other structure limits coarse sediment passage or to mitigate for past or present mining efforts Material typically can be placed at any time but usually done to coincide with high flow events; may take several months to get appropriate gravel mix made Often one of the cheapest methods; expense primarily associated with fuel costs for gravel delivery; Gravel costs increase with specialization of size classes. At present $15-20 per ton plus $0.16- 0.20 per mile transport; permitting may be several thousand dollars. It is often best to find "within basin" material to avoid impacting other watersheds and increase use by "local" fish; If there is no quarry available, you may want to mine your own material if available on site; especially mining tailings; Any material that must be transported from one location to another via public roads will require SMARA permitting; you may need to wash gravel which also requires special considerations with water rights or water quality restrictions; this technique may take years to demonstrate "success" Spawning Bed Enhancement Locations where flows are either too low to mobilize, clean and segregate coarse bed sediment or regulation has limited the source of coarse sediment. In either case this option is typically chosen when immediate habitat availability is needed. Typically must avoid timing for sensitive species, especially aquatic; This often leaves late summer to early autumn period only; may take several months to get appropriate gravel mix made Technique more expensive than Injection; Typically requires engineering designs. Strategically placed, washed -1 material may costs $25 ton but as much -3 -1 as $45 m (33 ton ); permitting may be several thousand dollars. Requires in-stream work with heavy equipment; see notes above for gravel sources etc; Permits may take 6 - 18 months; If fish are available, may be used immediately; May require maintenance if natural coarse sediment is limited Hydraulic structure placement Typically used where channelization, or flashy flows mobilize coarse materials; Can also be used in limited situations where high fine volume can be segregated from coarse bed material; Also when woody vegetation and debris have been reduced or removed from the system If heavy equipment used in stream or bank, must avoid timing for sensitive species, especially aquatic; This often leaves late summer to early autumn period only; This is perhaps the most expensive of the projects for size; Individual structural projects may cost as little as $1,500 for small streams to over $100k for large, engineered strcutures on mainstems. Materail such as trees that are available on site may significantly reduce costs; local timiber harvests may be willing to collaborate as mitigiation for their work Requires in-stream work with heavy equipment in most cases. Rarely can be done by hand crew or crane. Permits may take 6-18 months; Permits may take 6 - 18 months; Sediment scour, deposition or segregation will require at least 1 high flow event to see results 58 Gravel Injection Gravel Injection (also known as gravel replenishment) seeks to replenish some portion of a regulated river’s sediment budget deficit with imported sediment (Figure 33). This is typically achieved by dumping clean spawning gravels into piles along the edges of a stream at locations upstream of degraded spawning habitat reaches (usually just downstream of a dam). It is assumed that augmented gravels will be entrained during high flows with the competence to transport them downstream. Designs are rarely necessary for gravel augmentation, but a sediment budget and a monitoring program to enable adaptive management are appropriate. Figure 33. Gravel injection below Englebright Dam, Yuba River, California. Photo courtesy of U.S. Army Corp of Engineers. Spawning Bed Enhancement Spawning bed enhancement includes direct modifications to the bed (e.g. riffle construction, bed ripping and riffle cleansing) (Figure 34). Spawning bed enhancement that involves placement of gravel differs from gravel augmentation in that the augmented gravels are placed as specific bed features (typically riffles or bars), potentially providing immediate spawning habitat. Spawning bed enhancement can be used to improve the fluvial complexity of channels detrimentally simplified for flood control or mining purposes. Placed gravels are intended to decrease local depth and increase velocity to better match observed spawning preferences. Although bed enhancement may quickly provide usable spawning habitat, limited project life spans may result without adequate consideration of geomorphic processes. 59 Figure 34. Strategic gravel placement on the lower American River, California. Hydraulic Structure Placement Physical Function of Structures All structures placed in a channel have the potential to affect channel hydraulics, sediment scour and deposition patterns, and wood and sediment transport. According to Washington Department of Fish and Wildlife (WDFW 2002), the degree to which these effects achieve the desired results or place nearby habitat, infrastructure, property, and public safety at risk depends on a number of important variables that affect the way in which a structure functions in the stream. The following parameters should be considered in structure design: Channel constriction caused by the structure Location of the structure within channel cross-section and its height relative to the flow depth Structure spacing Structure configuration and position in the channel Sediment supply and substrate composition Channel confinement Hydrology Time The effects of these variables vary along a continuum, ranging from slight changes in channel or floodplain, to catastrophic channel aggradation, incision, or avulsion. Where a given project should be on this continuum depends on the project goals, which must be clearly identified from the outset. There are always potential unintended consequences of any structure placement. The designer should be aware of these consequences and realize that forces in streams act in ways that are beyond our control. 60 Placement of Structures The most common type of Spawning Habitat Rehabilitation (SHR) is hydraulic structure placement (often called habitat enhancement or instream structures). Physical structures (e.g. large wood material, boulder clusters, v-dams, half-log covers, deflectors) are placed in the channel to alter hydrodynamics in such a way that spawning gravels are deposited in the vicinity of the structures. The technique relies on an adequate upstream supply of appropriately-sized gravel and an active bedload transport regime to deliver it. Such structures may also be intended to provide refugia, cover and add habitat heterogeneity. In other instances, hydraulic structures are intended to promote pool scour. The implementation of hydraulic structure placement is typically prescriptive and often lacks adequate process considerations (Wheaton et al. 2004). The term “structure” (in the context of spawning habitat) refers to any intentionally placed object in the stream to (a) obstruct streamflow and force it to move around the structure or (b) provide cover to fish in the form of a visual or solar barrier. Because flow must accelerate as it moves around an object, its ability to carry sediment increases. As it passes the object, velocities typically decrease and water loses its ability to carry sediment. Structure, such as logs and snags, has been shown to cause local scour (Beschta, 1983; Lisle 1986; Bilby and Ward 1991), and to increase pool frequency (Hogan, 1987; Robison and Beschta 1990; Montgomery et al. 1995) and hydraulic roughness (Lienkaemper and Swanson 1987; Montgomery and Buffington 1993). This redirection, concentration, or expansion of flow influences the form, structure, hydraulics, and consequently, the function of the stream. Studies indicate that LWM creates scour pools that provide rearing and resting habitat for salmonids and other fish and collects sediment that is used by spawning salmon (Harmon et al. 1986; Lisle 1986; Merz 2001). However, instream structures are prone to having unintended consequences; caution must be exercised when using this approach. Structures encompass a broad range of objects, consisting of differing materials, functions, longevity, and scale. The most common structural enhancement materials are logs (a.k.a. Large Woody Debris or Material) and boulders. However porous weirs and drop structures are often used in the Pacific Northwest (Table 17). The size and quality of the material used can have major ramifications for project success and support from local community and resource agencies. Logs missing root wads or canopy may not function as well hydraulically or ecologically (Rosenfeld and Huato 2003). Broken rock or riprap may provide adequate results for habitat complexity but are aesthetically unpleasing. 61 Table 17. Primary functions of instream structures in habitat applications. Source: Taken from Washington Department of Fish and Wildlife (2004). Large Wood & Log Jams Boulder clusters Porous Weirs Drop Structures Create bed and bank scour YES YES YES YES Sort sediment YES YES YES YES Create backwater YES YES YES YES Stabilize or raise streambed YES NO YES YES Alter stream grade YES NO YES YES Provide cover, resting and high flow refuge YES YES YES NO Armor streambanks YES NO NO NO Improve wildlife habitat YES YES NO NO Redirect flow YES YES YES YES Trap material YES YES NO NO Provide fish passage YES NO NO YES Application Placement of instream structures is commonly done to improve instream fish habitat (Figure 35). These structures are typically intended to serve as analogs to otherwise naturally-occurring features (WDFW 2004). Certain benefits associated with instream structures (such as cover, shelter from fast moving current, or creation of velocity gradients) are available to fish and wildlife immediately following their installation. However, other benefits (such as scour, deposition, or sorting of bed material) may require several high flow events before they are realized. Instream structure installation can be successful. However, there is a tendency when using this approach to focus on the symptoms of habitat degradation rather than the cause (Roper et al. 1997), to implement without full understanding of resource needs (Beechie and Bolton 1999), and to provide benefits for a specific target fish species, sometimes at the expense of other fish and wildlife (Frissell and Ralph 1998). As a result, benefits may be temporary without maintenance and repeat application, they may be limited in scope, or they may never be achieved if the treatment does not address the factors that limit ecosystem productivity and recovery. In addition, incorrectly designed or constructed structures are prone to failure and causing further ecosystem degradation (Beschta et al. 1992). It should be noted that instream structures are temporary fixes to larger systemic watershed issues (Roni et al. 2002). Moreover, instream structures have a limited lifespan and may lose functionality over time (Thompson 2006). 62 Figure 35. Fall-run Chinook salmon spawning adjacent to large boulders placed in lower Mokelumne River, CA. Log jam placed adjacent to spawning gravel to provide heterogeneity. Roni et al. (2002) found that the success of common instream structure projects was quite variable and depended upon the species studied and project design. Instream structures are most effective at restoring or rehabilitating ecosystems when they address the principal cause of ecosystem degradation or when they are used to provide immediate improvement of habitat condition in conjunction with other techniques that address the root cause of the problem. They can also be used to enhance habitat when the materials and processes necessary for the natural occurrence of desirable habitat features and conditions are absent and cannot be restored given current constraints or be used until the system is able to recover and function on its own (e.g. coarse wood input from a functional riparian zone). Considering the risk of project failure and unintended consequences, structure installation and other instream rehabilitation or enhancement work should only be conducted with adequate site, reach, and watershed assessment to determine the nature and extent of problems in the watershed, determine the nature and extent of the cause(s) of those problems, and to establish realistic restoration goals, objectives, and priorities. The Spawning Habitat Integrated Rehabilitation Approach Wheaton et al. (2003) developed Spawning Habitat Integrated Rehabilitation Approach (SHIRA) for use on salmonid spawning habitat rehabilitation projects in regulated rivers. The approach is driven by a mix of field data, conceptual models, and numerical algorithms to provide predictive and explanatory insight into the design and planning process. At the heart of SHIRA is a conceptual spawning model that explicitly identifies the assumptions behind the approach (Figure 36). Although, this approach was developed specifically for spawning habitat restoration, many of its components are directly transferable to other forms of river restoration. There are other methods set forth in the literature (see Roni et al. 2002 as an example). 63 Figure 36. Conceptual spawning habitat model. The arrows indicate influences, the circles represent processes and characteristics, and the boxes are the results. A combination of hydrogeomorphic processes spanning a range of scales combine to create physical habitat. Physical habitat is chosen by females for redd construction based on the ecologic functions provided by physical habitat and ecologic factors including habitat heterogeneity, run size, timing, social factors and physiology. The survival of alevins and ultimate emergence of fry is then primarily controlled by the substrate and local flow conditions during the incubation period (taken from Wheaton et al. 2004) (Figure 37). 64 Figure 37. The SHIRA flowchart. The two primary components are phases and modes. Projects progress sequentially through specific project phases, ranging from the initial problem identification to long-term monitoring and adaptive management. During each of seven phases, four primary modes are used to collect and analyze data on which informed decisions can be based (from Wheaton et al. 2004). Before implementing a process such as SHIRA, we also recommend the following steps: 1. Identify stakeholders and interests 2. Identify project constraints (see below) 3. Define project goals and objectives 4. Evaluate the risks to the environment, infrastructure, property, and public safety that are associated with both project installation and failure Additional Considerations for Prioritization of Enhancement Projects Within this endeavor, we have developed a means to measure and prioritize the relative quantity and quality of salmonid spawning habitat (emphasizing coho salmon) within accessible areas of the Scott River Watershed. This process can be used to identify the most critical habitats for enhancement but also identify key areas presently available to target species. For reaches that 65 appropriately demonstrate the need for enhancement, the users of this program will need to also prioritize potential projects sites by cost, equipment accessibility, landowner willingness, area size, and goals for the Scott River Watershed in relationship to salmonid ecology and local community needs and concerns. These are issues are better addressed by stakeholder consensus rather than a scientific evaluation. Table 18 contains subjects that we believe are some of the key parameters that must be evaluated to prioritize restoration sites along with a mock-up of a potential scoring system to help prioritize sites. These parameters are provided as a starting point for dialog between watershed stakeholders about projects to benefit Scott River salmonid resources but that also meet the social and financial concerns and needs of the Scott River Watershed community. Estimating Costs The cost of LWM projects varies with the complexity of the design, site accessibility, flow conditions, and cost of LWM. Cederholm et al. (1997) estimated costs of LWM projects to vary by an order of magnitude ($12.90 vs. $164.50 per meter of channel length) due to differences in design complexity alone. There were some economic decisions that had to be made for the restoration of Elk Creek in Oregon because the equipment to perform the stream restoration had to be rented. Track-mounted excavators were used to install logs at a cost of $90-$100 per hour. The total Elk Creek restoration project cost $46,200 (including equipment and labor) in which approximately 2 km of the Nustucca River and Elk Creek were treated with 119 log structures (House et al. 1990). On another project, the restoration of Testament Creek in Oregon, a timber sale contract was modified at a cost of $50 per tree bole to pay loggers to place nonmerchantable wood material into the stream. A medium sized caterpillar tractor was also rented at approximately $50-$60 per hour to assist in placing the wood structure into the stream (House et al. 1989). Contacting county and state road repair crews before winter storms is a good way to develop a “free” source of LWM. However, the material must then be secured and transported to the project location. Purchasing logs can be quite expensive (Table 19). Other sources include downed trees in parks and woody material collection in local reservoirs. 66 Table 18. Stewardship prioritization in the Scott River watershed. Score 3 2 2 4 Subject and evaluation Species Benefits Project will benefit coho salmon spawning Project will benefit Chinook salmon spawning Project will benefit steelhead spawning Project will benefit coho and at least one other salmonid spawning 3 2 1 Project longevity Project will have significant long-term benefits for salmon spawning (>5 yr) Project will have moderate long-term benefits for salmon spawning (3-5 yr) Project will have relatively short-term benefits for salmon spawning (1-2 yr) 3 2 1 Engineering feasibility Would require limited engineering; liability low Would require moderate engineering; potential for some liability Would require expensive and complex engineering; High liability 4 3 2 1 Overall project size >1 acre of channel improvement 1/2 - 1 acre of channel improvement 1/4 - 1/2 acre of channel improvement <1/4 acre of channel improvement 3 2 1 0 -1 Cost <$50k $50 - 100k $101 - 200k $201 - 500k >$500k Scale of project improvement - "Bang for the Buck" cost divided by acreage 3 0 Landowner access- willing private or public owner Yes No 3 2 1 Equipment accessibility Easy access - Pre-existing roads; low slope; all equipment accessible with little or no modification to existing conditions Moderate - some difficulty in getting equipment to the site Difficult- may need to build roads or other access; slope may restrict access to most equipment 3 2 1 Environmental Response Short-term (immediate) - Should see immediate, measurable response to target organsim(s) from project Moderate response - May see limited response within 1-3 years after implementation Long-term - May take several years to see any measureable 3 2 1 Probability of success High probability of success Medium probability of success Low or unknown probability of success 3 2 1 3 2 1 Educational benefits Project ability to provide important information for future restoration and management is high long-term monitoring has occurred at site; funding available for continued tracking Project ability to provide important information for future restoration and management is moderate some pre-existing data present - possible monitoring to continue Project ability to provide important information for future restoration and management is low no pre-existing monitoring or data exists; little or no potential for post-project monitoring Collaboration potential Project has pre-existing funds available; Can coordinate with other activities Project has limited pre-existing funds available; Some potential to coordinate with other projects Project has no pre-existing funds; no potential to coordinate with other projects 67 Recent equipment estimates for loader and skidders in California is $100 – 250 per hour per piece of equipment. For more inaccessible areas, helicopter rental can be $1000 – 8000 per hour. River-run boulders have recently cost $40 -80 per ton for transport to enhancement locations (Merz, unpublished data). Table 19. Approximate cost (2010 year dollars) for common varieties of timber in Siskiyou County. Assume USD $0.06 – $0.10 km-1 for transportation costs from harvest location to enhancement site per log. Logs containing rootwads and/or canopy will be much more expensive. Ponderosa Pine Volume/16 ft Log >300 150-300 <150 Western Siskiyou Green Timber Salvage Timber $170 $130 $90 $70 $10 $10 Eastern Siskiyou Green Timber Salvage Timber $250 $190 $190 $140 $100 $60 Max. $250 $190 $100 Overall Min. $130 $70 $10 Avg. $185 $123 $45 Hemlock/Fir N/A $20 $15 $100 $50 $100 $15 $46 Douglas Fir >300 150-300 <150 $150 $100 $80 $110 $80 $60 $190 $170 $120 $140 $130 $90 $190 $170 $120 $110 $80 $60 $148 $120 $88 N/A $280 $210 $370 $280 $370 $210 $285 >125 $400 $300 N/A N/A ≤125 $300 $220 N/A N/A *All values are from the California State Board of Equalization (January 1, 2010 through June 30, 2010) **All values are based on use of conventional logging systems ***Values are in Dollars/MBF ****Volumes are in MBF (thousand board feet) $400 $300 $300 $220 $350 $260 Incense Cedar Port-Orford Cedar Gravel Sources for the Scott River If gravel enhancement is a chosen management decision in the Scott River drainage, reliable, quality material will be needed. The Scott River Watershed was heavily mined for precious metals (primarily gold). Gravel mining has occurred throughout the past 50-80 years and continues on a smaller-scale today. Gravel Purchase We surveyed records of gravel mining sources for the state of California (CALTRANS records). We found six businesses based out of the Scott River Watershed (Etna, Callahan, Fort Jones) that commercially sell gravels. Two gravel sources already provide screened material for enhancement (see Figure 38). 68 Figure 38. Potential gravel sources near the Scott River; Dredger tailings. Reclamation Gold dredgers deposited processed materials in long rows on the floodplain of many rivers throughout California. During the period from 1934 to about 1950, large gold dredges operated on the upper Scott River and Wildcat Creek. The largest dredge excavated to a depth of 50-60 feet below water line and processed millions of cubic yards of soil and gravel (Sommarstrom et al. 1990). These tailings consist of fine sand and gravel overlain by cobbles and boulders. Tailings currently cover approximately 372 acres of floodplain in vicinity of Callahan (Figure 30). We estimated tailing elevations of 10 to 50 feet during habitat surveys. This suggests that a conservative estimate of the volume of these tailings to be approximately 6.1 million yd3 (this should be evaluated more fully). This offers an opportunity to reclaim these materials for gravel enhancement and restoration of riparian floodplain. Such work can also have positive effects on ground water recharge. Similar work is being performed on the Trinity River and Central Valley rivers such as the American and Merced. Permitting (per Surface Mining and Reclamation Act requirements), archeological resources and remnant hazards (i.e., mercury) are issues that must be addressed. Permits and Approvals for Spawning Habitat Enhancement The following permits/authorizations are/may be required to implement a project as of August 2010: Section 404 of the Clean Water Act and Section 10 of the Rivers and Harbors Act The U.S. Army Corps of Engineers is authorized to issue permits for discharges of dredged or fill material into waters of the United States. Gravel augmentation is 69 considered fill material. Applications will be made for a Nationwide Permit 27 for the restoration of wetland and riverine habitats. NO FEE; WATER QUALITY CERTIFICATION REQUIRED Section 401 of the Clean Water Act State water quality standards cannot be violated by the discharge of fill or dredged material into waters of the U.S. The State Water Quality Control Board, through the Central Valley Regional Water Quality Control Board, is responsible for issuing water quality certifications, or waivers thereof, pursuant to Section 401 of the Clean Water Act. $640 FEE FOR RESTORATION PROJECTS; CEQA COMPLIANCE REQUIRED Federal Endangered Species Act (ESA) Section 7 of the ESA requires all federal agencies to consult with the USFWS and National Marine Fisheries Service (NOAA Fisheries) to ensure that their actions do not jeopardize the continued existence of endangered or threatened species or result in the destruction or modification of the critical habitat of these species. The Secretary of Commerce, acting through NOAA Fisheries, is involved with projects that may affect marine or anadromous fish species listed under the Endangered Species Act (ESA). All other species listed under the ESA are under USFWS jurisdiction. NO FEE National Environmental Policy Act (NEPA) National Environmental Policy Act (42 USC 4321, 40 CFR 1500.1) applies to any action that requires permits, entitlements, or funding from a federal agency; is jointly undertaken with a federal agency; or is proposed on federal land. The Act requires every federal agency to disclose the environmental effects of its actions for public review purposes and for assisting the federal agency in assessing alternatives to and the consequences of the proposed action. An Environmental Assessment (EA) is typically prepared to determine whether the project may have a significant environmental effect. If the project would not have a significant effect or if mitigation incorporated into the project description would reduce the project’s effect to a less-than-significant level, a Finding of No Significant Impact (FONSI) is prepared along with an EA; otherwise, an Environmental Impact Statement (EIS) is required. The EIS must consider, disclose, and discuss all major points of view on the environmental impacts of a proposed project and alternatives. The draft EIS must be circulated for public and agency review and comment. The U.S. Environmental Protection Agency (EPA) is authorized to review and comment on the environmental impact of matters subject to NEPA. After comments are received and reviewed, the final EIS is prepared and circulated and the lead agency issues a Record of Decision, which certifies compliance with NEPA and specifies mitigation requirements and commitments. California Environmental Quality Act (CEQA) In addition to complying with NEPA, the action must be in compliance with CEQA. Compliance with CEQA is required for implementation of restoration actions when: A California state, regional, or local agency approval or other discretionary action is required; or, A state or local agency is solely or partially a project sponsor. An Initial Study (IS) must be developed which includes the CEQA checklist for environmental impacts. A combined document (EA/IS) can be developed when the project must meet both NEPA and CEQA requirements. The CEQA process is similar to that required by NEPA, and requires state, regional, and local agencies to assess the environmental effects of proposed projects and to circulate these assessments to other 70 agencies and the public for comment before making decisions on the proposed projects. The Act applies to an action that is directly undertaken by a California public agency; is supported in whole or part through California public agency contracts, grants, subsidies, loans, or other assistance from a public agency; or, involves California public agency issuance of a permit, lease, license, certificate, or other entitlement for use by a public agency. NEED TO DETERMINE STATE LEAD AGENCY; REVIEW DOCUMENT WITH LEAD AGENCY; SEND UP TO 16 COPIES FOR DISTRIBUTION FROM THE STATE CLEARINGHOUSE; NO FEE California Endangered Species Act (CESA), California Fish and Game Code 2081, 2090 The California Endangered Species Act (CESA) allows CDFG the ability to authorize, by means of an incidental take permit, incidental take of state-listed threatened, endangered or candidate species if certain conditions are met. For CDFG projects, routine internal coordination occurs whenever CDFG proposes a project, which may impact a state-listed species of plant or animal. The CDFG strives to ensure that no threatened or endangered species would be adversely affected by their projects, even for projects otherwise exempt from the California Environmental Quality Act (CEQA). When CDFG proposes to undertake a project that has the potential for take of a state-listed species, if the project is part of the management of that species, i.e., for the protection, propagation, or enhancement of the species and its habitat, CDFG is not required to get a CESA Incidental Take Permit per California Code of Regulations, Title 14, Section 783.1. However, CDFG is still required to complete its obligations under CEQA and prepare a Negative Declaration or an EIR, as appropriate, for the proposed project. The Fish and Wildlife Coordination Act The Fish and Wildlife Coordination Act requires federal agencies to consult with USFWS, NOAA Fisheries, and state fish and wildlife resource agencies before undertaking or approving water projects that control or modify surface water. The AFRP will work to ensure the proposed project’s compliance with the Fish and Wildlife Coordination Act. The Essential Fish Habitat (EFH) provisions of the Magnuson-Stevens Fishery Conservation and Management Act of 1996 The EFH provisions require federal agencies to consult with NOAA Fisheries on project actions that may adversely affect the habitats of the west coast salmon fisheries and other fisheries managed in federal waters. NO SPECIFIC ACTIONS; ADDRESSED IN SECTION 7 Fish and Game Code Section 1600 et. seq., Streambed Alteration Agreement California Department of Fish and Game has regulatory authority with regard to activities occurring in streams and/or lakes that could adversely affect any fish or wildlife resource, pursuant to Fish and Game Code Section 1600 et seq. Authorization is required for proposed projects prior to any activities that could substantially divert, obstruct, result in deposition of any debris or waste, or change the natural flow of the river, stream, or lake, or use material from a stream or lake. FEE DETERMINED BY COST OF PROJECT; CEQA COMPLIANCE REQUIRED Central Valley Flood Protection Board (CVFPB) Encroachment Permit The CVFPB issues permits to maintain the integrity and safety of flood control project levees and floodways that were constructed according to flood control plans adopted by the Board of the State Legislature. 71 NO FEE; CEQA COMPLIANCE REQUIRED State Lands Commission Land Use Lease The State Lands Commission has jurisdiction and management control over those public lands received by the state upon its admission to the United States in 1850 that generally include all ungranted tidelands and submerged lands and beds of navigable rivers, streams, lakes, bays estuaries, inlets, and straits. FEE $3,025 ($3,000 staff time; $25 filing fee); COUNTY APPROVAL NEEDED FOR APPLICATION County Approval There may be permits specific to the county the project occurs in that need to be acquired. At the minimum, it is necessary to obtain a letter of approval from the county to include with the application for the State Lands Commission Land Use Lease. Local Approvals If project occurs within the city limits, it may be necessary to check with the local city council about project activities and obtain any local permissions or permits. Adjacent Landowner Approval Adjacent landowner approval may be required by the city or county for project actions to occur. The State Lands Commission Land Use Lease also requests a letter of project support from the adjacent landowners. National Historic Preservation Act, Section 106 Projects must coordinate with the State Historic Preservation Office and the Advisory Council on Historic Preservation regarding the effects that a project may have on properties listed, or eligible for listing, on the National Register of Historic Places. Section 106 also requires federal agencies to evaluate the effects of federal undertakings on historical, archaeological, and cultural resources. The AFRP will work to ensure the proposed project has compliance with Section 106 of the National Historic Preservation Act. NO FEE Local Air Pollution Control District Certain districts require that all portable equipment registrations be obtained for all project equipment. Floodplain Management - Executive Order 11988 Executive Order 11988 requires that all federal agencies take action to reduce the risk of flood loss, to restore and preserve the natural and beneficial values served by floodplains, and to minimize the impact of floods on human safety, health, and welfare. Protection of Wetlands - Executive Order 11990 Executive Order 11990 requires federal agencies to follow avoidance, mitigation, and preservation procedures with public input before proposing new construction of wetlands. Environmental Justice in Minority and Low-income Populations-Executive Order 13007Executive Order 12898 72 Executive Order 12898 requires federal agencies to identify and address disproportionately high and adverse human health and environmental effects of federal programs, policies, and activities on minority and low-income populations. Indian Trust Assets, Indian Sacred Sites on Federal Land-Executive Order 13007, and American Indian Religious Freedom Act of 1978 These laws are designed to protect Indian Trust Assets, accommodate access and ceremonial use of Indian sacred sites by Indian religious practitioners and avoid adversely affecting the physical integrity of such sacred sites, and protect and preserve the observance of traditional Native American religions, respectively. CONCLUSIONS AND MANAGEMENT IMPLICATIONS . Answers to Priority Study Questions Is the rate of coarse sediment delivered to spawning reaches in the Scott River (upper river and canyon reach) and in its tributaries limiting spawning habitat availability of current and projected population targets? Transport capacity and sediment supply index results show that downstream trends in gravel are generally consistent with the scientific literature (for discussion see Constantine et al 2003). Other than the two anthropogenic barriers on Etna Creek and the mainstem Scott River, gravel transport is unimpeded. Pebble count data and survey data indicate that suitable gravels sizes are found in conjunction with slopes also suitable for spawning. These observations suggest that the amount of coarse sediment and its rate of delivery are not limiting spawning habitat availability in the Scott River Watershed. Is the quality of the existing spawning gravel impaired by excessive fine sediment? The monitoring program identified existing levels of fine sediment that indicate impaired salmonid spawning areas of the Scott River Watershed. This is not new information; other studies within the watershed have documented fine sediment issues (Sommarstrom et al 1989; Quigley 2008). However, the Plan’s embryo survival modeling exercise equated fine sediment levels to salmon embryo survival throughout reaches of the watershed accessible during this survey and demonstrated a wide range of habitat quality, including very high and extremely low survival estimates. This method will allow for monitoring how well watershed management, including enhancement and recovery, will influence the quality of habitat for salmonid embryo incubation and survival. Identification of Physical Processes Relevant to Spawning and Incubation Success Salmon producing streams generally need three basic ingredients: water, sediment, and coarse woody material. When supplied at rates, magnitudes and quality that are complementary to the complex life history needs of salmonids, physical habitat is generally present and of suitable quality to meet spawning, incubation and emergence requirements. We integrated topographic data, air photos and site reconnaissance information to help establish linkages between historic and current land use, intrinsic landscape processes and salmonid habitat to determine what 73 physical processes, specific to the Scott River watershed, are relevant to spawning and incubation success. In the Scott River watershed a legacy of historic impacts still bares its mark on channel morphology and riparian plant communities. These historic effects comingle with modern impacts, affecting present day physical habitat quantity and quality. Channel morphology is the expression of a complex suite of physical processes operating over a variety of temporal and spatial scales. Our study shows that channel morphology in many locations has been detrimentally impacted from historic and modern disturbances. The most basic signature of this disturbance is a uniform channel geometry with poorly sorted (e.g. unorganized variation in surface sediment size and/or orientation) sediments. It is known in fluvial geomorphology that variations in channel width and depth co-vary. In instances where we noted inadequate pools, the channel was typically confined and had very little variation in channel width. Moreover, in streams where sediment sorting was poor we noted that there was a uniform channel width and/or a lack of structural elements that create diverse hydraulic and sediment sorting patterns. Forced pool habitat associated with woody material is considered one of the highest-used spawning habitats for coho salmon (Buffington et al. 2004). Our study also revealed that the occurrence of LWM (e.g. logs, rootwads, snags) in sampled streams is much less than what the scientific literature suggests is needed for salmonids. Researchers sometimes quantify the amount of LWM in streams by using the number of pieces per 100 m that are large enough to influence the channel characteristics (Stillwater Sciences 1997). House and Boehne (1986) estimated that, in a relatively undisturbed section of a small stream in Oregon, there were 18 pieces of LWM per 100 m large enough to influence the channel. Sedell et al. (1982; 1984) found that five (1982 study) and four (1984 study) pieces of LWM per 100 m influenced the stream channel by creating pool habitat in undisturbed channels of the South Fork Hoh River, Washington. Bilby and Ward (1989) surveyed characteristics of LWM in western Washington streams and found that size of stable pieces of LWM increases with stream size. Their values suggest that streams under 5 m in width require trees of about 30–35 cm in diameter to be useful as fish habitat and to be able to persist as stable LWM in the channel. Streams of about 10 m in width require larger trees of about 45 cm (1.5 ft) in diameter. In a basin in which over 50% of the forest had been logged in the past 20 years, House and Boehne (1986) found that the reduction of large conifers in the riparian zone resulted in only 0.4 pieces per 100 m of LWM large enough to influence channel morphology. Rosenfeld and Huato (2003) found that the proportion of wood material that formed pools increased from 6% for pieces with a diameter of 15–30 cm to 43% for pieces with a diameter of more than 60 cm. Large woody material more than 60 cm in diameter formed a higher proportion of pools across all channel widths. A simple, size-structured model of LWM abundance in small streams suggests that loss of LWM larger than 60 cm in diameter will greatly decrease pool frequency across all channel widths but have the greatest impact on large streams. While these studies are more related to the Pacific Northwest, they do demonstrate the lack of quantity and quality of LWM within the Scott River Watershed. The results of this work on spawning substrate quantity and quality suggest that while there is extensive quality habitat for coho spawning there are also numerous areas where improvements 74 can be made. Specifically, there is an overall lack of LWM and an over-abundance of confined channels in the lower watershed. Use of the Scott River Spawning Habitat Management Plan This Plan provides watershed stakeholders with a framework for identifying, quantifying and qualifying spawning habitat for anadromous salmonids within the Scott River Basin and for prioritizing and strategizing the protection and maintenance of quality habitat as well as enhancement of sub-optimal habitat. The goal of this document is to provide management tools that support the coexistence of a productive, viable basin fishery, a healthy economy, and a quality of life for the community of the Scott River Basin. The Plan is envisioned as a living document that will continue to be refined as river restoration moves forward, more scientific information on Scott River salmonids is gathered, and more stakeholder outreach activities have been completed and documented. Priorities for Spawning Gravel Management The hierarchical strategy we present is based on six elements: (1) principles of watershed physical processes, (2) identifying existing high-quality habitats, (3) identifying and prioritizing compromised habitats that otherwise meet general spawning requirements of native salmonids, (4) current knowledge of the effectiveness of specific enhancement techniques, (5) long-term monitoring, and (6) adaptive management. Following a watershed assessment, efforts should focus on protecting areas with intact processes and high-quality habitat. Secondly, potential spawning reaches should be identified and prioritized as to their level of impairment and what techniques can be used to enhance substrate quality and habitat morphology within impaired reaches (Figure 39). As enhancement is implemented, monitoring should identify what works and what does not. Techniques that do not function well should be avoided and new techniques should be implemented under the process of adaptive management (see below). It is important to note that this Plan focuses on quantity and quality of spawning gravels and augmentation of sediment and structure. These are short-term fixes. Spawning gravel management should be incorporated into an overall watershed management plan that also focuses on reconnecting isolated high-quality fish habitats, such as instream or off-channel habitats made inaccessible by artificial obstructions, as well as restoring hydrologic, and riparian processes (Roni et al. 2002). 75 Habitat meets the requirements of spawning and incubating salmonids (see Chart 1) Chart 3 Yes Not potential spawning habitat; No need for further assessment Spawning habitat is of high quality (see Chart 2) No Yes No Appropriate for enhancement? Continue to monitor Yes No Decide enhancement action No No Action performed? Yes Yes Yes Implemented as planned? Effective at improving habitat? Adaptive management No Figure 39. Prioritization planning for monitoring and enhancement of salmonid spawning habitat. Identify, Designate and Protect Functional Spawning Habitat It is recommended that the assessment process we outline above be used to identify and designate strategic habitat areas for the maintenance of spawning populations of Scott River salmon and steelhead (emphasizing coho salmon). At present, French Creek appears to provide some of the best available habitat for coho salmon spawning and incubation. While it lacks appropriate levels of LWM (similar to the entire watershed) the stream has a high probability for being open during the coho spawning season. The ~ 9500 m stretch of French Creek, encompassed by Reaches 1 through 3, has a gradient that is medium to high preference and bed substrate sizes preferred by coho salmon. Low fine sediment concentrations throughout this stream segment indicate conditions for relatively high estimated embryo survival. Reach 1 also has some of the highest recorded coho redd numbers in the watershed. Identify, Designate and Prioritize Impacted Spawning Habitat for Enhancement The prioritization scheme identified 10 reaches which ranked medium to high for potential enhancement or rehabilitation through gravel augmentation or structural enhancement. It is important to note that in a dynamic watershed such as the Scott River, rankings will most likely 76 change over time due to management implementation and general evolution of the watershed in relationship to anthropogenic and natural disturbance. Finalize and implement a long-term monitoring and enhancement program In addition to identifying enhancement sites we make the following recommendations: 1. We believe that a long-term monitoring program should be run through the RCD to ensure standardized, quality monitoring occurs. However, there should be an oversight committee that directs the monitoring program, makes suggestions on how to track and improve monitoring and helps prioritize restoration implementation. 2. In order for the monitoring program to be effective, data require spatial analysis and such information should be kept together in one location. The database should be regularly backed up and stored at another facility. 3. Data collection should be expanded to areas of the watershed that were not accessed during this process, including sampling and classification of reach scale habitat. 4. The gradient model should be refined to incorporate “edge-effect” associated with delta formation at the mouths of tributaries. The mouth of Tompkins and Canyon creeks are examples of this. 5. The gravel size model should better define reach variation that might be obscured under the present monitoring scheme. The South Fork Scott River is an example. 6. Continue flow discharge monitoring on tributary reaches and expand coverage to the East side of the Valley (i.e. Moffett Creek). 7. Monitor slope and cross section changes at study sites. Limitations The Plan only provides a framework for the assessment of two components of salmonid lifehistory, spawning and incubation habitat. In general, much of what occurs on the Scott River is uniquely related to what happens in the Klamath River watershed and there are many issues impacting salmonid spawning resources of the Scott River that are outside the scope of this study. For instance, the water quality of the Scott River and its tributaries was listed as “impaired” for sediment and temperature, under Section 303(d) of the Clean Water Act, by the North Coast Regional Water Quality Control Board and the US EPA and are targeted for nonpoint source management. Temperature issues include: 1) solar heat load (i.e., sunlight) at streamside (riparian) locations in the Scott River Watershed; 2) heat load from tailwater return flows; and, 3) reduced assimilative capacity from surface water flow reductions. Inadequate streamflow is a commonly identified problem of the Scott River, particularly in Scott Valley, and it directly affects other local water quality problems, such as high temperature and nutrient levels, primarily during the summer (Quigley 2008). Low flows in the Scott River and tributaries have caused poor holdover of adult salmon until spawning, blocked access to upstream spawning areas, and reduced availability of spawning sites. Coho salmon in the region were listed as 77 threatened under the federal Endangered Species Act in 1997 by the National Marine Fisheries Service. This listing increases the need to understand and improve the quality of coho salmon habitat in the Scott River system. To function properly, this Plan should be incorporated as part of a broader strategy, including longterm economic and life quality issues for the people of the Scott Valley community, water quality management, riparian vegetation management, flood protection, permitting programs and Klamath Watershed management plans. This includes collaboration with Klamath River programs. Adaptive Management Employment of an adaptive management strategy will increase the effectiveness of restoration actions and address scientific uncertainty. Adaptive management is an approach that allows resource managers and watershed stakeholders to learn from past experiences through formal experiment or by altering actions based on their measured effectiveness. Monitoring programs are the foundation of the adaptive management approach. Adaptive management is the planning, design, implementation, and monitoring of restoration projects to address the important questions regarding their success and longevity. The concept of adaptive management is to acknowledge uncertainty about the way natural systems function and, how best to achieve desired restoration goals, in the face of this uncertainty. Adaptive management helps refine the actions necessary to meet certain restoration objectives based on robust data acquired from monitoring. It is learningbased management (MacDonald et al. 2007). Results are used to evaluate whether different restoration actions were effective at achieving specified goals, and to update knowledge and adjust restoration actions (MacDonald et al. 2007) (Figure 40). Assess Problem Design Implement Adjust Evaluate Monitor Figure 40. Basic flow diagram of adaptive management activities. Research, monitoring, and evaluation are central to adaptive management, and implementation of these activities is how the science-management interface is informed (Magnuson et al. 1996). MacDonald et al. (1991) defines several types of monitoring including Implementation Monitoring which determines if the proposed action was implemented as planned, and Effectiveness Monitoring which determines if the proposed action had the desired effect. 78 Outreach Restoration planning is generally more effective when it includes public participation and support (AMFSTP 2002). Local communities are often the best stewards of their environment, and can be engaged through outreach activities that encourage participation with local projects, including planning and monitoring. We recommend that the users of this document engage the local community in the restoration planning process, and potential feedback mechanisms that would allow for community participation and involvement. The primary target audience for outreach will include residents of local communities of the Scott River Watershed, recreational users, local government agencies, timber and agricultural interests, non-profit environmental and recreational organizations, and the irrigation and water districts that obtain water from the river. The Scott River Watershed Council and the Siskiyou Resource Conservation District can provide critical links between land owners, other stakeholders, including the public (resource agencies) and private sectors (Griffin 2007). A variety of other tools may also be used including public meetings to present and discuss the Plan and planning process, newspaper articles, and a project website where interested parties may get contact information, download support materials, and give feedback. River restoration has value in its ability to recover essential fish habitats, but also in its ability to restore important ecosystem processes that may contribute to an improved environment (Loomis et al. 2000). For instance, by restoring and improving functional side channels and floodplains, these actions may also benefit flood control and improve water and air quality among other benefits. These areas may also provide services such as groundwater recharge, nutrient exchange, prey resource production, and improved aesthetics (e.g., native plant communities), thereby improving the quality of life for the local community with the restoration process. When these goals become synonymous with salmonid habitat enhancement, managers improve the ability to communicate with, and garner support from, the local community. ACKNOWLEDGEMENTS This project was funded by a grant through the Pacific States Marine Fisheries Commission. We are indebted to the numerous landowners that allowed us access to the Scott River through their homes and properties. Without them, this document would not be possible. The people we met were friendly and interested in our work and it made for a wonderful experience and facilitated our ability to collect quality data for this study. We are grateful to the numerous scientists that have carried out research in the Scott River and adjacent watersheds which provided a framework and guidance for our research. We also gratefully acknowledge the authors of the published science and research that is the backbone of this project. We thank C. Burr, T. Kennedy, M. Kirsten, J. Montgomery, K. Munson, N. Retford, B. Walsh, C. 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The persistence of these disconnected reaches into the period of adult Chinook and coho migration into spawning grounds can limit the access to otherwise available spawning habitat for these two anadromous species. This analysis attempts to utilize discharge data collected at the USGS gaging station on the Scott River below Fort Jones and DWR gages on Shackleford and French creeks in conjunction with observations of the timing of connectivity during different water years to generate a better understanding of the available universe of potential spawning grounds during the period of Chinook and coho salmon migration. The majority of observations on tributary-main stem connectivity have been documented in the Scott Valley since 2001 during the performance of on the ground adult coho spawning and carcass surveys. For this reason this analysis is limited to the water years (WY) of 2002 – 2010. Certified USGS daily mean discharge (cfs) data is presented for WY2002 – WY2009 with preliminary discharge data presented for WY2010 (Figures 1 – 19). Discharge data is presented for the period of October 1st through January 31st for each water year. It is believed that this period encompasses the majority of Chinook salmon migration and the entirety of coho salmon migration in the Scott River. I Map 1 – Stream reaches disconnected from the Scott River due to the occurrence of subsurface flow in the Scott Valley. Areas disconnected on an average year are denoted with solid black line features. Areas that become disconnected during periods of drought are denoted by the white line. II Figure 1 – Scott River below Scott River – daily mean discharge – 10/1/01 – 1/31/02 Figure 2 – Scott River below Scott River – daily mean discharge – 10/1/01 – 1/31/02 Figure 3 – Scott River below Scott River – daily mean discharge – 10/1/02 – 1/31/03 III Figure 4 – Scott River below Scott River – daily mean discharge – 10/1/02 – 1/31/03 Figure 5 – Scott River below Scott River – daily mean discharge – 10/1/02 – 1/31/03 Figure 6 – Scott River below Scott River – daily mean discharge – 10/1/03 – 1/31/04 IV Figure 7 – Scott River below Scott River – daily mean discharge – 10/1/03 – 1/31/04 Figure 8 – Scott River below Scott River – daily mean discharge – 10/1/04 – 1/31/05 Figure 9 – Scott River below Scott River – daily mean discharge – 10/1/04 – 1/31/05 V Figure 10 – Scott River below Scott River – daily mean discharge – 10/1/04 – 1/31/05 Figure 11 – Scott River below Scott River – daily mean discharge – 10/1/05 – 1/31/06 Figure 12 – Scott River below Scott River – daily mean discharge – 10/1/06 – 1/31/07 VI Figure 13 – Scott River below Scott River – daily mean discharge – 10/1/06 – 1/31/07 Figure 14 – Scott River below Scott River – daily mean discharge – 10/1/07 – 1/31/08 Figure 15 – Scott River below Scott River – daily mean discharge – 10/1/07 – 1/31/08 VII Figure 16 – Scott River below Scott River – daily mean discharge – 10/1/08 – 1/31/09 Figure 17 – Scott River below Scott River – daily mean discharge – 10/1/08 – 1/31/09 Figure 18 – Scott River below Scott River – daily mean discharge – 10/1/09 – 1/27/10 VIII Figure 19 – Scott River below Scott River – daily mean discharge – 10/1/09 – 1/27/10 Observations of connectivity, based on adult coho spawning ground surveys Tributary 2001 2002 2003 Scott Tailings East Fork and South Fork *12/4 2004 no connectivity issue connected by 11/29/04 always connected Sugar Creek always connected always connected Wildcat Creek not before 11/22 15-Dec no connectivity issue French Creek not before 11/22 15-Dec no connectivity issue Etna Creek not before 11/22 15-Dec unk 6-Dec Patterson (Etna) not before 11/22 15-Dec unk 6-Dec Kidder Creek not before 11/22 15-Dec Moffet Creek 8-Jan-02 27-Dec not before 11/22 *12/12 did not connect during spawning 27-Dec early January 27-Dec 8-Dec 6-Dec Not connected as of Not connected as of Jan 9, 04 Jan 16, 05 Not connected as of Not connected as of Jan 9, 04 Jan 16, 05 not before 11/22 27-Dec Not connected as of Not connected as of Jan 9, 04 Jan 16, 05 Shackleford Creek Indian Creek Rattlesnake Creek Patterson (Fort Jones) * spawning oberved Table 1 – Periods and dates of connectivity for 2001 - 2004 IX always connected always connected 6-Dec Not connected as of Not connected as of Jan 9, 04 Jan 16, 05 Observations of connectivity, based on adult coho spawning ground surveys Tributary Scott Tailings 2005 2006 2007 no connectivity issue 2008 2009 Connected between 11/5 11/11 By Oct 19th East Fork and South Fork always connected always connected always connected always connected always connected Sugar Creek always connected always connected always connected always connected always connected Wildcat Creek French Creek no connectivity issue By Oct 19th By Oct 26th 12/16 flood event By Oct 19th 21-Dec Patterson (Etna) 12/16 flood event By Oct 19th Kidder Creek 12/16 flood event By Oct 19th Moffet Creek 12/16 flood event not connected as of Jan 12, 2007 Indian Creek 12/16 flood event Rattlesnake Creek 12/16 flood event by Nov 14 not connected as of Jan 12, 2007 not connected as of Jan 12, 2007 12/16 flood event not connected as of Jan 12, 2007 Patterson (Fort Jones) * spawning observed *Nov 9 by Nov 14 unknown Etna Creek Shackleford Creek *Nov 9 By Oct 19th early March 2009 22-Dec unk unk By Oct 19th intermittent, 12/2? unk unk 31-Dec not connected as of Jan 29, 2010 21-Dec not connected as of Jan 29, 2010 not connected as of Jan 29, 2010 unk Table 2 - Periods and dates of connectivity 2005 – 2009 Scott River Main Stem – Fort Jones Reach During periods of low water supply in the Scott River Watershed the main stem of the Scott River surface flow is lost in areas of the low gradient channel of the valley. This disconnected channel has been documented to persist into October during the period of Chinook migration impeding the migration of Chinook to their spawning grounds in the Scott Valley. It is believed that a flow of approximately 30 – 35 cfs at the USGS gage below Fort Jones (RM – 21) is necessary to allow volitional access to the Chinook spawning grounds between Fay Lane and the mouth of Etna Creek. These flows were not met during the Chinook migration of 2001 (Figure 20) a year in which all Chinook spawning was limited to the bottom 7 miles of the Scott River Canyon due to the persistence of very low flows (less than 10 cfs at the USGS gage) until the occurrence of a series of precipitation events from 11/10 - 11/21/2001 (totaling ~ 3 inches). The relatively strong cohort of adult coho salmon was attempting to migrate into the Scott Valley during this period of 2001. Several observations of adult coho salmon holding in locations of the Scott River’s canyon led to the hypothesis that the persistence of these low flows into middle November created low flow passage barriers to adult coho migration (Mauer, 2002). Low flows of this nature have not been seen at the USGS gage since the 2001 event. The flow at the USGS gage and the extent of disconnected channel in the Scott River on October 1st, 2009 was roughly equivalent to that observed on October 1st, 2001 (Figure 21). Flows in the Scott River at the gage were less than 10 cfs until a precipitation event occurring on Oct. 13th and 14th restored surface flow connectivity to the Scott River through the Fort Jones reach. This connectivity allowed for the migration of Chinook salmon into the spawning grounds of the Scott Valley. These two years with limited early fall water supply were used to illustrate two scenarios for salmon migration to the spawning grounds in the Scott Valley. In 2001, sustained precipitation and connectivity did not occur until mid-November blocking the migration of X Chinook salmon to the valley reaches and potentially impeding the migration of coho salmon. In 2009, a single precipitation event in mid October generated surface flow in the Scott River and a period of flow greater than 30 cfs at the USGS gage allowing for migration of Chinook to the valley reaches. These examples demonstrate the necessity of a significant precipitation event to generate connectivity and/or sufficient flows to allow for the migration of adult salmon to the Scott Valley and tributaries. cfs 200 USGS - Scott River below Fort Jones WY2002 150 100 daily mean cfs 50 0 10/1/2001 10/22/2001 11/12/2001 12/3/2001 12/24/2001 date Figure 20 – Discharge at the USGS gage below Fort Jones – Oct. 1st – Dec. 31st, 2001 cfs 200 USGS - Scott River below Fort Jones WY2010 - provisional data 150 daily mean cfs 100 50 0 10/1/2009 10/22/2009 11/12/2009 12/3/2009 date 12/24/2009 Figure 21 - Discharge at the USGS gage below Fort Jones – Oct. 1st – Dec. 31st, 2009 Adult coho salmon spawning ground surveys have been performed in the Scott River Watershed since the fall of 2001 and we have observed the timing of coho entry and spawning in the Scott Valley and tributaries is driven by the late fall water supply and instream flow regime (Table 3 Quigley, 2006). XI Table II. Spawning Timing 2001/2002 2002/2003 2003/2004 2004/2005 2005/2006 Ist Coho (Live) observation 1st Significant Flow Event Nov 21 Nov 20 Dec 16 Oct 25 Oct 27 11/22 ,12/7,12/14 4-Dec 7-Dec 12/8,12/14 11/15, 11/26 Peak Spawning Period 12/20-1/2 12/18-12/20 12/1-1-7 12/13-12/24 11/30-12/08 st th th th th Note: 2004-2005 was the first year the a concerted effort was made during Adult Chinook Surveys to identify live coho salmon. Table 3 – Excerpt from Quigley, 2006 – coho observations and significant flow events Scott River Tailing Pile – The upper reach of the main stem Scott River is confined on both banks by tailings piles created by large scale dredging from the mid 1930’s to the mid 1950’s. The tailings piles start downstream of the confluence of the South and East Forks at Callahan and extend for approximately five miles to a location about 1 mile above Fay Lane. A significant reach of the Scott River through the tailings piles loses surface flow during the average low flow period of late summer and early fall. This area of disconnection extends from below Sugar Creek to the end of the tailings piles where surface flow is restored. This disconnected reach of the main stem prohibits access to several major tributaries with potential coho spawning habitat: East Fork Scott River, South Fork Scott River, Wildcat Creek and Sugar Creek. Because surface flow through the tailings pile reach is regularly observed to occur before adult coho salmon migrate to the Scott Valley, there has been no imperative for the Siskiyou RCD to document the date and flow regime at which this occurs. The tributaries above the disconnected reach through the tailings piles have no connectivity issues that block access. It was observed in 2007 that the tailings pile reach connected by October 19th. A storm event created a runoff event in the Scott River that peaked at approximately 800 cfs at the USGS gage on October 20th (Figure 14 and 15). In 2009, the tailing pile reach connected during the runoff event following a significant precipitation event on October 13th through 14th and then disconnected until connectivity returned sometime from Nov. 5th to 11th. Inspection of the mean daily discharge at the USGS gage below Fort Jones (Figure 22) shows the discharge exceeding 30 cfs during the runoff event in October and then subsiding to below 30 cfs until November 5th. After November 5th the discharge increases to greater than 40 cfs. This indicates that the tailings pile reach was connected when there was greater than 30 cfs of discharge at the USGS gage in 2009. If this is the case in all water years and water supply regimes, the tailings pile reach becomes connected at approximately the same flow regime at the USGS gage that is required for the volitional migration of adult salmon to the Scott Valley. If the same flow regime is required to remove the bottleneck to migration into the Scott Valley and above the tailings pile reach then the tailings pile reach is not impeding migration of adult salmon. There are two complications to the last assertion: 1) potential groundwater recharge and flow attenuation between the tailings pile and the USGS gage and 2) the potential that Youngs Dam (the diversion structure for the Scott Valley Irrigation District) does not volitionally pass adult salmon when the USGS gage is at 30 – 40 cfs. These two complications, exacerbated in years with low water supply (e.g. 2009), are not fully understood and require further investigation. In summary, it is hypothesized that the disconnected reach through the tailings pile area of the Scott River reconnects at approximately the same discharge magnitude at which adult salmon are able to access the Valley reach downstream. XII cfs 50 USGS - Scott River below Fort Jones WY2010 - provisional data 40 daily mean cfs 30 20 10 . 0 date 10/1/2009 10/8/2009 10/15/200 10/22/200 10/29/200 11/5/2009 11/12/200 9 9 9 9 cfs 50 USGS - Scott River below Fort Jones WY2010 - provisional data 40 daily mean cfs 30 20 10 0 date 10/1/2009 10/8/2009 10/15/200 10/22/200 10/29/200 11/5/2009 11/12/200 9 9 9 9 Figure 22 – Provisional mean daily discharge at USGS gage 10/1 – 11/15/09 The tailing pile reach has never been disconnected into the period of adult coho salmon migration during the period of spawning ground surveys (2001 – 2009). Adult coho were observed spawning in the tailing reach during the beginning of the observed spawning activity (late November) of 2004. It is not known if this main stem spawning was volitional or due to insufficient attractor flows in the tributaries (e.g. East Fork and South Fork), see Figure 23. The magnitude of discharge required to allow volitional migration of adult salmon to the South and cfs USGS - Scott River below Fort Jones WY2005 150 140 130 120 110 100 90 80 70 60 50 40 30 20 10 0 10/1/2004 daily mean cfs 10/15/2004 10/29/2004 11/12/2004 East Fork is unknown. Figure 23 – Mean daily discharge at USGS gage 10/1 – 12/7/04 Mouth of Shackleford Creek XIII 11/26/2004 date The confluence of Shackleford Creek with the Scott River loses surface flow connection during the average low flow period of late summer and early fall (Picture 1). Spawning ground surveys performed in Shackleford Creek in the 1980’s documented significant utilization of this tributary by adult Chinook salmon (West, unpublished data). Chinook salmon were observed spawning in the lower reach of Shackleford Creek in 2006 and 2007 when connectivity was achieved at the mouth during the period of migration. A significant population of Chinook spawns in the main stem Scott River in the vicinity of the confluence with Shackleford Creek. Shackleford Creek and Mill Creek (a major tributary) offer both suitable spawning habitat and rearing habitat for adult and juvenile salmonids. Picture 1 – Mouth of Shackleford 12/23/09 The California Dept. of Water Resources (DWR) has operated a stream gage above the mouth of Shackleford Creek since 2004. DWR has documented that it takes approximately 15 – 18 cfs of discharge to generate surface flow connectivity at the mouth of Shackleford Creek and approximately 25 cfs is required to generate a flow of 10 cfs at Shackleford’s confluence with the Scott River. It is hypothesized by DWR and accepted by Cal. Dept. of Fish and Game that approximately 25 cfs at the gage is required to generate sufficient flows for volitional access to Shackleford Creek. This criterion will be used to access the timing of sufficient connectivity for Shackleford Creek from WY2005 – 2008 (the period of certified data currently available) (Figures 24 – 27). In most years, the first significant precipitation event creates a runoff event that peaks well in excess of the 25 cfs threshold at the DWR gage on Shackleford Creek and the flow maintains above this threshold for the period of coho migration (WY2005 – 2007 Figure 24 – 26). XIV cfs 100 90 Shackleford Creek - daily mean discharge WY2005 80 70 daily mean 25 cfs 60 50 40 12/7/04 30 ↘ 20 10 0 10/1/2004 10/22/2004 11/12/2004 12/3/2004 date 12/24/2004 1/14/2005 Figure 24 – Mean daily discharge at DWR Shackleford Creek gage – WY2005 cfs 100 90 Shackleford Creek - daily mean discharge WY2006 80 70 daily mean 25 cfs 60 50 40 30 20 11/5/05 10 0 10/1/2005 ↘ 10/22/2005 11/12/2005 12/3/2005 date 12/24/2005 1/14/2006 Figure 25 - Mean daily discharge at DWR Shackleford Creek gage – WY2006 cfs 100 90 Shackleford Creek - daily mean discharge WY2007 80 70 60 50 daily mean 40 30 11/12/06 ↘ 20 10 0 10/1/2006 10/22/2006 11/12/2006 12/3/2006 date 12/24/2006 1/14/2007 Figure 26 - Mean daily discharge at DWR Shackleford Creek gage – WY2007 XV cfs 100 90 Shackleford Creek - daily mean discharge WY2008 80 70 60 11/13/07 ↘ 50 40 30 20 daily mean 10 0 10/1/2007 10/22/2007 11/12/2007 12/3/2007 date 12/24/2007 1/14/2008 Figure 27 - Mean daily discharge at DWR Shackleford Creek gage – WY2008 In WY 2008 (Figure 27), Shackleford Creek became connected following the first significant precipitation event in Mid- October 2007 but subsequently disconnected when the flows receded. This pattern of intermittent connectivity was also observed in the early fall of 2008 (Table 2). In the drought year of 2009, Shackleford Creek did not achieve connectivity until December 21st and was observed disconnected the subsequent week. Connectivity did not return until January 1st, 2010. Analysis of the USGS data for this period shows the Scott River discharge exceeding 100 cfs on Dec. 21 and receding below 80 cfs on Dec. 28th. It is hypothesized that Shackleford Creek attains connectivity when the USGS gage is in excess of 80-100 cfs. cfs USGS - Scott River below Fort Jones WY2010 - provisional data 150 140 130 120 110 100 90 80 70 60 50 40 30 20 10 0 10/1/2009 daily mean cfs 10/22/2009 11/12/2009 12/3/2009 12/24/2009 date Figure 28 – USGS daily mean discharge- data provisional – 10/1/09 – 1/1/10 Inspection of the flows at the Shackleford and USGS gages during WY2008 (Figure 29) corroborates the observations of WY2010. Shackleford Creek’s discharge is less than 25 cfs in approximately the same period that the USGS’s discharge is less than 100 cfs. These observations lead to the hypothesis that Shackleford Creek achieves and maintains connectivity when the Scott River at the USGS gage is greater than approximately 100 cfs. A significant storm event connected Shackleford Creek during the drought year of 2001 on November 22nd with no subsequent lack of connectivity. The observation made in December 2009 documented the latest reconnection of Shackleford Creek during the nine year period of this report. XVI Shackleford Cr (DWR) and Scott River (USGS) daily mean discharge - WY2008 cfs 140 120 100 Shackleford 25 cfs USGS 80 60 40 20 0 10/1/2007 10/15/2007 10/29/2007 11/12/2007 11/26/2007 date Figure 29 – Discharge at USGS and Shackleford gages – WY2008 Kidder Creek, Big Slough, Patterson and Johnson Creeks – The west side tributaries between Etna Creek and Shackleford Creek are connected to the Scott River at the confluence of Kidder Creek. Big Slough is created by the confluence of Johnson, Crystal and Patterson Creek and Big Slough joins Kidder Creek north east of the town of Greenview. Adult coho have been documented spawning and rearing in Kidder Creek and Patterson Creek and are suspected to utilize portions of Johnson Creek for spawning and/or rearing. This system of tributaries has significant reaches along the valley floor that are dry during the average low flow period of late summer and early fall. Past observations of connectivity demonstrate that connectivity is usually attained at the same time in all of the streams following a significant precipitation event. For several years (2001, 2004, 2005, 2007) connectivity of Kidder and Patterson Creek follows the same event that generated connectivity in Shackleford Creek. Observations in 2009 corroborate this for Kidder Creek but document Patterson Creek achieving full connectivity almost 10 days later then Kidder Creek. In the winter of 2008-2009, Patterson Creek was observed to be disconnected for periods through February. The intermittent connectivity observed in the valley reach of Patterson Creek during the winter months of low flow water years should be considered when evaluating the desirability of introducing spawning habitat. cfs 300 USGS - Scott River below Fort Jones WY2009 250 200 150 100 daily mean cfs 50 0 10/1/2008 10/29/2008 11/26/2008 12/24/2008 1/21/2009 2/18/2009 date Figure 30 – Mean daily discharge at the USGS – 10/1/08 – 2/22/09 Etna Creek – XVII Etna Creek is disconnected during the average low flow year from above Highway 3 to the confluence with the Scott River. The observed connectivity of Etna Creek coincides closely to the connectivity observed for Shackleford and Kidder Creek. Etna Creek achieved connectivity on Dec. 21st, 2009 the same day as Shackleford Creek became connected and a day before Kidder Creek was observed to be completely connected. French Creek – French Creek becomes disconnected for a short alluvial section in the lowest ½ mile before the confluence with the Scott River during drier than average water years. French Creek has been observed to be connected during average water years but the flow is probably not sufficient to allow volitional passage of Chinook or coho salmon. The Cal. Dept. of Water Resources has operated a stream discharge gage above the HWY3 Bridge since 2004. This location is approximately 1 mile from the confluence with the Scott River. DWR has estimated that it takes approximately 5 cfs of water at the gage to insure connectivity to the Scott River and 10 cfs of water to insure volitional fish passage. For this analysis, the certified flow data from WY2005 – WY2008 (Figure 31 – 34) will be reviewed with the 10 cfs criteria as the threshold for volitional fish passage for adult salmon. The 10 cfs criteria was exceeded in mid October – Early November for all of the water years displayed (10/23/04, 11/3/05, 11/3/06 and 10/16/07) and flows in excess of 10 cfs are maintained after the initial data for all displayed water years except WY2005. No connectivity issue was observed in WY2005. cfs 100 French Creek - daily mean discharge WY2005 80 60 mean daily cfs 10 cfs 40 20 0 10/1/2004 10/21/2004 11/10/2004 11/30/2004 12/20/2004 1/9/2005 date Figure 31 – Daily mean discharge at French Creek gage – WY2005 cfs 100 French Creek - daily mean discharge WY2006 80 60 40 mean daily cfs 10 cfs 20 0 10/1/2005 10/21/2005 11/10/2005 11/30/2005 12/20/2005 1/9/2006 date Figure 32 - Daily mean discharge at French Creek gage – WY2006 XVIII cfs 100 French Creek - daily mean discharge WY2007 80 60 40 mean daily cfs 10 cfs 20 0 10/1/2006 10/21/2006 11/10/2006 11/30/2006 12/20/2006 1/9/2007 date Figure 33 - Daily mean discharge at French Creek gage – WY2007 cfs 100 90 80 70 60 50 40 30 20 10 0 French Creek - daily mean discharge WY2008 mean daily cfs 10 cfs 10/1/2007 10/21/2007 11/10/2007 11/30/2007 12/20/2007 1/9/2008 date Figure 34 - Daily mean discharge at French Creek gage – WY2008 Analysis of the mean daily discharge at the USGS gage in the period in which French Creek exceeded 10 cfs of discharge at the DWR gage shows that approximately 80 cfs is observed at the USGS gage when the threshold criteria is met in French Creek (USGS - 10/23 – 10/24/04 60100 cfs, 11/3 – 11/4/05 – 60 cfs, 11/3 -4/06 – 80 cfs & 10/27 – 11/2/07 – 80 -100 cfs after run off event). Chinook salmon have been observed spawning in lower French Creek in limited numbers and there has never been a concern that coho salmon are unable to volitional enter French Creek due to flow issues during the period of this report. Moffett Creek– Analysis of the mean daily discharge at the USGS gage in the period in which French Creek exceeded 10 cfs of discharge at the DWR gage shows that approximately 80 cfs is observed at the USGS gage when the threshold criteria is met in French Creek (USGS - 10/23 – 10/24/04 60100 cfs, 11/3 – 11/4/05 – 60 cfs, 11/3 -4/06 – 80 cfs & 10/27 – 11/2/07 – 80 -100 cfs after run off event). Chinook salmon have been observed spawning in lower French Creek in limited numbers, and there no known reports of coho salmon being unable to volitionally enter French Creek due to low flows or the absence of surface flows during the period of this report. Indian Creek – Indian Creek has achieved connectivity to the Scott River two times during the period of this report – December 27th, 2002 and after December 16th, 2005. It is important to note that Indian Creek did not achieve connectivity in January 2002 when Moffett Creek became connected. These observations lead to the conclusion that Indian Creek requires flows well in excess of 3,000 cfs in order to achieve connectivity. XIX cfs 3000 USGS - Scott River below Fort Jones WY2002 2500 2000 1500 daily mean cfs 1000 500 0 10/1/2001 10/22/2001 11/12/2001 12/3/2001 12/24/2001 1/14/2002 date Figure 35 - Mean daily discharge at the USGS – 10/1/01 – 1/15/02 cfs 3000 USGS - Scott River below Fort Jones WY2005 2500 2000 daily mean cfs 1500 1000 500 0 10/1/2004 10/29/2004 11/26/2004 12/24/2004 1/21/2005 date Figure 36 - Mean daily discharge at the USGS – 10/1/04 – 1/31/05 Two factors are hypothesized to limit the connectivity of Moffett and Indian Creek until a significant persistent precipitation event generates flows in the Scott River in excess of 3,000 cfs: 1) legacy land use that has significantly altered the channel structure and watershed landscape, and 2) both watersheds are in areas of relatively low precipitation (Map 2). Moffett Creek has been observed to be intermittent throughout its low gradient valley reaches through the winter months and the headwaters of the watershed are of lower elevation than the west and south side of the Scott River limiting the amount of snow pack and the associated spring runoff. Groundwater’s role in the connectivity of Moffett and Indian Creeks is largely unknown. XX Map 2 – Precipitation in Scott River Watershed Conclusion – This report details observations of main stem and tributary connectivity in relation to measured discharge at the Scott River USGS gage and the DWR gages in Shackleford and French Creek. It XXI should be noted that the criteria of connectivity used in this analysis was connectivity with discharge of a sufficient magnitude to allow migration of adult Chinook or coho salmon to a reach above the location. This analysis has found three groupings of connectivity (Table 4). All reaches of the Scott River and the East and South Fork become accessible when flows are in excess of approximately 40 cfs at the USGS gage. The major west side tributaries become accessible when discharge at the USGS gage is in excess of 80-100 cfs. The tributaries draining the relatively dry watershed located in the north east need discharges in excess of several thousand cfs at the USGS gage to become connected. Access to (above) Flow regime at USGS gage Scott River - Scott Valley 30-35 cfs Scott River - Above Tailing Pile 30-40 cfs French Creek 80 cfs Shackleford Creek 100 cfs Kidder Creek 100 cfs Patterson Creek 100 - 200 cfs Moffett Creek 3,000 cfs Indian Creek 5,000 cfs Table 4 – Approximate flow regime observed at USGS gage when listed locations achieve connectivity Two major observations are generated by this analysis. 1) There is not a significant difference between the magnitude of discharge needed to allow migration to the west side tributaries but Moffett and Indian Creek need an order of magnitude greater flow to become connected and 2) channel restoration should be considered as a potential for restoring connectivity at a lower discharge threshold in key tributaries with short reaches of disconnection (e.g. Shackleford Creek). References: Cal. Dept. of Water Resources (2010) accessed at http://www.water.ca.gov/waterdatalibrary/ Maurer, Sue. (2002) Scott River Watershed Adult Coho Spawning Survey December 2001January 2002. USDA, Forest Service Klamath National Forest. pp.122 Maurer, Sue. (2003) Scott River Watershed Adult Coho Spawning Survey December 2002January 2003. Siskiyou RCD pp. 130 Quigley D. (2004) Scott River Coho Spawning Assessment – 2003/2004 Season. Siskiyou RCD pp. 27 Quigley, D.(2005) Scott River Watershed Adult Coho Spawning Ground Surveys 2004/2005 Season. Siskiyou RCD. pp 148. Quigley, D.(2006) Scott River Watershed Adult Coho Spawning Ground Surveys 2005/2006 Season. Siskiyou RCD. pp 51. Quigley, D.(2007) Scott River Watershed Adult Coho Spawning Ground Surveys 2006/2007 Season. Siskiyou RCD. pp 24. USGS – National Water Information System (2010) accessed at http://waterdata.usgs.gov/ca/nwis/rt XXII