FY20 will mark the 23nd year of sampling, making the Juvenile Salmon and Ocean Ecosystem Survey (JSOES) the longest running salmon survey on the west coast. JSOES has clearly demonstrated correlations between ocean conditions and the distribution, abundance, and survival of juvenile Columbia River (CR) salmon in the Northern California Current (NCC) nearshore ecosystem. For example, our ocean indicators provide managers from the federal and state governments, tribes, and other agencies/groups the ability to forecast adult returns one to two years in advance for coho and spring/summer Chinook salmon. We continue to show the importance of evaluating ocean conditions to support management decisions and to provide context for efforts by the Northwest Power and Conservation Council (NWPCC) and BPA to restore and enhance salmon production. The primary goal of our work is to develop a mechanistic understanding of how trophic dynamics and conditions in the ocean and CR plume affect survival of juvenile salmonids. This knowledge will allow us to improve forecasts in a quantitative rather than qualitative manner, and decouple the effects of mitigation efforts in the freshwater environment from the effects of a changing ocean environment. These improved forecasts will lead to well-informed recommendations for an ecosystem approach to management strategies based on the full suite of river, plume, and ocean environments. Stomach Contents from juvenile salmonids, primarily Chinook and Coho.

Sampling juvenile salmon and associated fishes in open waters of the lower Columbia River estuary. Field work includes bi-weekly sampling during the spring outmigration (Apr-June), and monthly sampling throughout the summer and fall. We use a purse seine to sample open water habitats. Our objectives are to document the seasonal and interannual variation in juvenile salmon immediately prior to ocean entry, with respect to abundance, size, origins (H/W), stocks, food habitats, and parasites/pathogens. We also document the larger estuarine fish community, which serves a critical role as prey for juvenile salmon predators. Abundance and size of fish caught in Columbia estuary.

Data on Parasite communities in juvenile Chinook salmon, Coho salmon, and steelhead.

FY20 will mark the 23nd year of sampling, making the Juvenile Salmon and Ocean Ecosystem Survey (JSOES) the longest running salmon survey on the west coast. JSOES has clearly demonstrated correlations between ocean conditions and the distribution, abundance, and survival of juvenile Columbia River (CR) salmon in the Northern California Current (NCC) nearshore ecosystem. For example, our ocean indicators provide managers from the federal and state governments, tribes, and other agencies/groups the ability to forecast adult returns one to two years in advance for coho and spring/summer Chinook salmon. We continue to show the importance of evaluating ocean conditions to support management decisions and to provide context for efforts by the Northwest Power and Conservation Council (NWPCC) and BPA to restore and enhance salmon production. The primary goal of our work is to develop a mechanistic understanding of how trophic dynamics and conditions in the ocean and CR plume affect survival of juvenile salmonids. This knowledge will allow us to improve forecasts in a quantitative rather than qualitative manner, and decouple the effects of mitigation efforts in the freshwater environment from the effects of a changing ocean environment. These improved forecasts will lead to well-informed recommendations for an ecosystem approach to management strategies based on the full suite of river, plume, and ocean environments. Nekton and juvenile salmon collections from surface trawl.

This BPA-funded study provides estimates of smolt survival and travel time through individual reaches and reaches combined in the Snake and Columbia Rivers hydropower system each year. Smolts are PIT tagged at Lower Granite Dam and combined with smolts tagged by other researchers in the basin to estimate survival and travel time. This project also operates the PIT tag trawl in the Columbia River estuary which provides detection data necessary to estimate survival through the final reach to below Bonneville Dam. This information is used to help the region focus on where passage improvements are needed to improve survival and travel time through the Federal Columbia River Power System (FCRPS). Annual reach survival estimates.

The Auke Lake system has endemic populations of pink, chum, sockeye and coho salmon, and supports populations of Dolly Varden char and cutthroat and steelhead trout. The National Marine Fisheries Service (NMFS), and its predecessor agency, U.S. Bureau of Commercial Fisheries, began salmon research at Auke Creek, near Juneau, Alaska, in 1961. There are emigrant and immigrant counts of several species over nearly five decades (Appendices 1 and 2). Pink salmon fry populations at Auke Creek were estimated annually, 1972-79, and counted at the weir since 1980. Fyke nets were used capture sockeye salmon smolts leaving Auke Lake, and estimates are available for some years between 1961 and 1979. Total sockeye smolt counts are available since 1980. Chum salmon fry were counted annually since 1985. Coho salmon smolt estimates were made in 1976, 1977, and 1979, and the total coho smolt emigration was counted since 1980. Dolly Varden char and cutthroat trout were counted in 1970 and since 1980. Steelhead emigrants were counted since 1990. Weir counts of sockeye salmon adults at Auke Creek began in 1963; pink and chum salmon were counted 1967-68, and all salmon were counted since 1971. Chinook salmon entered Auke Creek since 1987 as a result of releases of juveniles from other hatcheries. Immigrant Dolly Varden and cutthroat and steelhead trout were counted from 1997-2006. Auke Creek is the site of many research projects on wild and hatchery salmonids. The present weir at Auke Creek was constructed in 1980, and provided the capability to capture all emigrant and immigrant salmonids. Annual operations and maintenance costs associated with Auke Creek Research Station are provided by NMFS through the salmon research program of Auke Bay Laboratory. Projects at Auke Creek between 1971 and 1983 operated under several cooperative agreements. An interagency cooperative agreement relating to Auke Creek weir was established in 1983 between the NMFS, University of Alaska-Fairbanks (UAF), and Alaska Department of Fish and Game (ADFG). The agreement provided the authority to jointly fund a full-time person to assist with the operation of the fish counting weir at Auke Creek. The primary objective is to operate the weir on a daily basis and maintain the long-term data collections on migrant salmonids. Auke Creek weir usually operates from early March through late October. A report of fish counts from daily weir operations and other information related to salmonid research involving the facilities at the weir is prepared each year. The annual fish count data are available in the Auke Creek data file at the NMFS Auke Bay Laboratory. Data collected on specific projects outside the scope of the cooperative agreements are usually not included in the annual report. Those data may be available from project investigators or their respective agencies.

A 2007 pilot study was initiated by the University of Alaska – Southeast in which baseline levels of contaminants, including persistent organic pollutants (POPs) and total mercury, were determined in whole bodies of juvenile coho salmon collected in streams in and near national park units in the Southeast Alaska Inventory and Monitoring Network. Although the concentrations of POPs determined in the juvenile coho were relatively low (< 10 ng/g, wet weight), the preliminary findings of this study indicate that, in the Glacier National Park region, salmon from streams with higher density of spawners had increased levels of certain banned chlorinated pesticides (i.e., alpha-chlordane, o,p’-DDT, p,p’-DDD) compared to salmon collected in other streams with lower salmon spawning density. A follow up study will be initiated in spring/summer 2015 to determine concentrations of POPs in resident salmonids, as well as benthic macroinvertebrates collected from five streams that have fish barriers near or adjacent to Glacier National Park. Comparisons in contaminant concentrations and patterns will be made for fish collected below and above the barrier in each stream to help determine if certain classes of POPs are being transported by the spawners. As part of this study, the NWFSC will analyze whole bodies/muscle of salmonids and benthic macroinvertebrate samples POPs using gas chromatography / mass spectrometry (GC/MS). Percent lipid content of samples (with adequate sample mass) will also be determined. These data will be included in a report to the NIH-sponsored IDeA Network of Biomedical Research Excellence. Determining levels of persistent organic pollutants in salmonids and macroinvertebrates.

This data package contains field observation data associated with the Portland Harbor, Oregon Superfund Site phase 3 (completion of the Natural Resource Damage Assessment, NRDA) juvenile Chinook Salmon study, which was conducted from 2018-04-17 to 2018-04-22. It includes fish catch data collected with a beach seine and describes associated benthic habitat and environmental conditions. The data is available in spreadsheet format. The related datatable is the raw field observation template spreadsheet which was then processed into the main datatable.

FY20 will mark the 23nd year of sampling, making the Juvenile Salmon and Ocean Ecosystem Survey (JSOES) the longest running salmon survey on the west coast. JSOES has clearly demonstrated correlations between ocean conditions and the distribution, abundance, and survival of juvenile Columbia River (CR) salmon in the Northern California Current (NCC) nearshore ecosystem. For example, our ocean indicators provide managers from the federal and state governments, tribes, and other agencies/groups the ability to forecast adult returns one to two years in advance for coho and spring/summer Chinook salmon. We continue to show the importance of evaluating ocean conditions to support management decisions and to provide context for efforts by the Northwest Power and Conservation Council (NWPCC) and BPA to restore and enhance salmon production. The primary goal of our work is to develop a mechanistic understanding of how trophic dynamics and conditions in the ocean and CR plume affect survival of juvenile salmonids. This knowledge will allow us to improve forecasts in a quantitative rather than qualitative manner, and decouple the effects of mitigation efforts in the freshwater environment from the effects of a changing ocean environment. These improved forecasts will lead to well-informed recommendations for an ecosystem approach to management strategies based on the full suite of river, plume, and ocean environments. Lab Lengths, weight, genetics, IGF-1 (growth), and otolith microchemistry from juvenile salmonids.

The California Monitoring Plan (CMP) salmonid monitoring areas and associated population data are part of an ongoing effort to summarize existing and past salmonid monitoring efforts in the areas identified by Adams et al. 2011. These data are compiled and maintained by the California Department of Fish and Wildlife with the cooperation of monitoring practitioners. Updates and associated outreach are intended to occur on an annual basis. Data were created from several sources and existing datasets: some monitoring areas were accurately depicted using the USGS National Hydrography Dataset (NHD), other monitoring areas were approximated using the monitoring point location and the USGS StreamStats tool to depict the watershed area above that point. The areas are intended to represent the approximate extent of sampling within sub-basins, watershed areas, or regions. For example, the spatial extent of monitoring using a fixed count station is approximated by accounting for all anadromous fish habitat upstream of the sampling location. Therefore, the area is approximated by entering the monitoring location coordinates into the StreamStats tool. The resulting shapefile is then examined to ensure the watershed area did not include habitat above dams or barriers to migration. Areas were clipped when needed. The data user should recognize that errors may have occurred during production of this dataset, changes may have occurred to the external sources used post transfer, and for other possible reasons. The population metrics summarized in the associated tabular data may be regarded as spatially limited, temporally limited, and not considered a complete estimate for the population being described. The data user is advised to refer to the annual reports cited in the Source field from the tabular data for additional details regarding monitoring within the area spatially depicted.Abbreviation Definitions: SGS = Spawning Ground Survey, RM = River Mile, RST = Rotary Screw Trap, RKM = River Kilometer, FCS = Fixed Count Station, STH = Steelhead, CC = Coastal Chinook, DS = Downstream