Occurrence and habitat use of SRKW and other top marine predators

The goal of the experiment was to determine if incubation temperature effected fish growth and survival 31 days after feeding. The broodyear 2011 fish were placed into the experimental incubation treatments just after they had reached the eyed egg stage in late 2011. The eyed eggs and yolk sac fry were then either incubated in (6.5 degree C) or unchilled (9-10 degree C) water until they reached the swimup stage in early 2012. Although incubation temperature was the primary treatment variable of interest, the experimental design included the portion of the run when the eggs were spawned (= time when the eggs were place into the treatment) and hatchery source as secondary treatment variables of interest. The response variables of interest were average length in mm, weight in grams, and percent survival of fry in each replicate tanks 31 days after they swamup.
2012 Early Life History Experiment Data
This work is collecting data on the length, weight, and survival of sockeye salmon ponded in chilled and unchilled water crossed with fish sourced from Burley Creek Hatchery Broodstock and Eagle Hatchery Broodstock.

Integrated acoustic and trawl survey of Pacific hake off the Pacific Coast
Acoustic data
Raw acoustic backscatter (ER 60.raw) and Echolog 60 (Echoview.ek6) data files are logged.

This table contains analytical measurements of various chemical constituents in water.
Analyses of water and tissue samples
Analyses of water and tissue samples for pesticides.

This is a table of microsatellite genotypes for Little Sheep steelhead included in Berntson et al. 2011. Transactions of the American Fisheries Society 140:685-698. Each locus is represented by two alleles, 3 digits for each allele, where alleles are mobility/size determined, per standard published criteria. Loci are the SPAN suite, described in Blankenship et al. 2011. Transactions of the American Fisheries Society 140:665-684.
BPA genetic monitoring
Initiated in 1989, this study monitors genetic changes associated with hatchery propagation in multiple Snake River sub-basins for Chinook salmon and steelhead. We also derive estimates of reproductive success for individual families and groups of fish. The information obtained from this study directly addresses a critical knowledge gap identified by comanagers, which is: under what conditions does hatchery supplementation provide a sustained contribution to natural production? Co-managers are ODFW, CTUIR, NPT, WDFW, IDFG, and SBT. This type of monitoring work is now an essential part of hatchery reform and the goal of using widespread hatchery propagation in recovery of natural populations.

This table georeferences all of the locations of beaver found in California from early to mid-19th Century, based on the seminal work of Tappe (1942) and Grinnell (1937).
Beaver Evidence
Location of historical locations of beaver in CA

This table summarizes all available trapping data since 1950, provided by the California Department of Fish and Wildlife (formerly Fish and Game) since 1950, sorted by County. Trapping densities are the total beaver trapped divided by County area.
Beaver Evidence
Location of historical locations of beaver in CA

This table contains analytical results of physiological and behavioral measurements in fish.
Behavioral observations
Behavioral observations and video of salmonids responding to odors and predators.

This table contains analytical results of physiological and behavioral measurements in fish exposed to pesticides and other chemicals.
Behavioral observations
Behavioral observations and video of salmonids following exposure to pesticides.

Estimates of bald eagle daily consumption of chum salmon in Skagit, Hamma Hamma, and Nisqually regions of Puget Sound during winters in 1970s and 2050s. Estimates are derived from bald eagle bioenergetics modeling described in Harvey et al. 2012, Ecology and Evolution 2:501-514.
Bioenergetics model output
Spreadsheet

site/event information for side channel thalweg profiles in the Elwha River.
Biological
All relevant biological data

measurements from side channel thalweg profiles in the Elwha River.
Biological
All relevant biological data

Catch data from the Integrated acoustic and trawl survey of Pacific hake off the Pacific Coast
Biological data
Biological data collected from FSCS during catch processing

Operation details from the Integrated acoustic and trawl survey of Pacific hake off the Pacific Coast
Biological data
Biological data collected from FSCS during catch processing

Specimen data from the Integrated acoustic and trawl survey of Pacific hake off the Pacific Coast
Biological data
Biological data collected from FSCS during catch processing

These tables contain information on the density of seabirds or other animals/objects counted during ship-based visual strip-transect surveys in the California Current Ecosystem.
Bird Distribution and Abundance
Species, abundance, and distribution of birds during salmon surveys.

Water Temperature Data for Bridge Creek Watershed.
Bridge Creek IMW database
Physical and biological data

Table contains metrics data for Elwha Pink Salmon captive brood maturity.
Broodyear Data
Data is collected by broodyear on % survival to adult, % maturity as two year olds. Age of maturity data is available by sex.

Broodyear and survival data from the Redfish Lake Idaho Sockeye Salmon captive broodstock study from 2000-2010.
Broodyear data
Data is collected by broodyear on % survival to eye, % survival to spawning, % survival to smolt, % survival to adult, % maturity as two year olds, % maturity as three year olds, and % maturity as four year olds. Age of maturity data is available by sex.

California Current Ecosystem Integrated Assement
CCIEA data and model output
Data and model output gathered and generated by the California Current Integrated Ecosystem Assessment team

Data collected using the protocols established by the Columbia Habitat Monitoring Program
CHaMP metrics
CHaMP metric data set consists of the entire suite of measurements described in the 2012 CHaMP protocol. A three-person crew surveys the topography (both the in-channel bathymetry and out-of-channel topography including the near channel floodplain) at a site and collects auxiliary data at both the channel unit scale (fish cover estimates, large woody debris, ocular estimate of substrate, pebble counts of bed material in riffles, pool tail fines, and undercut banks) and the site level scale (macroinvertebrate drift, discharge, solar input, riparian structure, alkalinity, conductivity, photographs, and water and air temperature loggers). The crews post process the data collected at each of the sites, which entails a QC of the survey point data, importing the survey point data into ArcGIS and converting the points into a TIN, and converting the topographic TIN to a DEM. Additional GIS products are also produced during the post-processing and include a water surface TIN, water surface DEM, and water depth raster.

Collaborative Research on Oregon Ocean Salmon
CROOS
Chinook genetics for stock identification

This table contains cruise and raw and processed data from NWFSC prerecruit survey CTD casts for the years 2011, 2013, 2014, and 2015.
CTD data
Temperature, salinity, conductitity, chlorophyll, oxygen

Data about Sablefish sampled in California between August 2012 and February 2014.
California coast sablefish
Size, sex, gonad stage, fecundity

Replicate of EDC Catcher-Processor view
Catcher Processor Cost Earnings Data
Cost earnings data for catcher processors

Replicate of EDC Catcher-Vessel cost view
Catcher Vessel Cost Earnings Data
Cost earnings data for catcher vessels in trawl rationalization program

Single nucleotide polymorphism (SNP) data from Chinook salmon sampled at Landsberg Dam on the Cedar River, WA, in 2010, 2011, and 2014 Each row in the table contains the genotype of an individual fish for 96 SNP loci.
Cedar River Chinook genotypes
Genotypes and associated phenotypes for Cedar River Chinook salmon

Sampling information for Chinook salmon sampled at the Landsberg Da (Cedar River, WA) in 2010, 2011, and 2014. Each row contains information on one sampled fish.
Cedar River Chinook genotypes
Genotypes and associated phenotypes for Cedar River Chinook salmon

Ecosim model parameters for ecosystem-based management applications in Puget Sound.
Central Puget Sound Ecopath/Ecosim model biological parameters
Spreadsheets

Ecosim model outputs for ecosystem-based management applications in Puget Sound.
Central Puget Sound Ecopath/Ecosim model outputs
Spreadsheets

Chemical contamination analysis of Atlantic Dogfish.
Chemical tracers in Northwest Atlantic dogfish
Persistent organic pollutants, stable isotopes, and lipids in smooth and spiny dogfish from the northwestern Atlantic

Chemical contamination analysis of Atlantic Dogfish.
Chemical tracers in Northwest Atlantic dogfish
Persistent organic pollutants, stable isotopes, and lipids in smooth and spiny dogfish from the northwestern Atlantic

Pump Failure Data and Model Results.
Chiller Design Model
This model can be used to size glycol and water reservoirs to control the rise in temperature following chiller failure.

Chiller Failure for No Reservoir Data and Model Results.
Chiller Design Model
This model can be used to size glycol and water reservoirs to control the rise in temperature following chiller failure.

Chiller Failure Data and Model Results.
Chiller Design Model
This model can be used to size glycol and water reservoirs to control the rise in temperature following chiller failure.

Time series of adult chum salmon mean size at age.
Chum and pink salmon genetics
Tissues collected from Washington and Oregon adult spawners and carcasses between 2009 and present for DNA extraction

Data for calculating habitat impact scores for each estuary in the NOAA coastal framework, as part of the NFHAP 5-year habitat assessment. Summary of methods, analysis, and results can be found in Greene et al. (2014) Estuaries and Coasts, DOI 10.1007/s12237-014-9855-9.
Coastal Assessment Framework
Geographic data on the nation's coasts and estuaries

These data represent generalized social vulnerability composite scores for each of 880 West Coast communities.
Community social vulnerability indicies
These data represent generalized social vulnerability composite scores for each of 880 West Coast communities.

Surveys in Untrawlable Habitat
DIDSON ultrasonic video data
Ultrasonic video data

Data on the behavior of killer whales in relation to vessel distances and genders of the whales from 2014.
DTAGs SRKW
Southern resident killer whale tag data

Noise level data from dtag recordings and associated vessel data collected in 2010-2012 for the dtag study (Houghton et al 2015 PLOS ONE).
DTAGs SRKW
Southern resident killer whale tag data

Data collected at the surface during focal follows in 2010-2012 for the dtag study (Houghton et al 2015 PLOS ONE).
DTAGs SRKW
Southern resident killer whale tag data

Water velocity measurements at each site. HACH Ultrasonic Submerged Area Velocity Meters (Sigma 950) were deployed approximately 24-hours at each site. Sensors were 7 cm above the ground in the middle of the culvert, vault, or channel floor.
Data logger database
Access database of data loggers

Continuous sensor data from three two-week observation periods at each site, including water level, salinity, and temperature at one-minute intervals above and below each culvert and vault, and at each reference channel.
Data logger database
Access database of data loggers

Details of each site surveyed, including site names and place names, site type, and physical dimensions and charecteristics of the site.
Data logger database
Access database of data loggers

This is a table referencing DNA sequences generated from deep sea corals collected by a number of agencies. All sequences are published in one of two databases, and those accession numbers are included here. The Genbank Database can be accessed here: https://www.ncbi.nlm.nih.gov/genbank/. The National Coral Database can be accessed here: https://deepseacoraldata.noaa.gov/.
Deep Sea Coral voucher sequence dataset
A collection of genetic barcodes for all verified voucher specimens of deep sea corals in our collections. Also includes SEM images for some species.

Counts of diet items identified in fish stomach samples using a compound microscope. Diet includes invertebrates (larvae or nymph; pupae; adult) and fish from the stream, and adjacent terrestrial invertebrates that fall into stream. Objective of collecting these data were to establish baseline data on resident fish diets before provision of fish passage at the dam in 2003. Fish passage was installed to allow Pacific salmon access to the watershed above the dam for the first time in 100 yrs. For details on sample collection and processing see Kiffney, P. M., C. J. Volk, and J. Hall. 2002. Community and ecosystem attributes of the Cedar River and tributaries before arrival of anadromous salmonids. Technical report submitted to Seattle Public Utilities.
Diet
Diet data from resident fish and juvenile coho

Dissolved oxygen was measured with a YSI ProODO or a YSI 556 MPS unit and results are expressed in mg/Liter.
Dissolved Oxygen
Dissolved oxygen will be measured with a YSI ProODO or a YSI 556 MPS unit and results expressed in mg/Liter. Units will be air calibrated daily.

Cast log with details on each water column profile that was collected. Profile data are linked to cast log using the Cast Key.
EPA Townetting CTD casts
Access database containing all conductivity/temperature/depth (CTD) casts

Water column profiles collected with SBE 19plusV2 SEACAT Profiler equipped with a SBE 43 Oxygen, WET Labs ECO-AFL/FL Flourometer and Turbidity, Biospherical/Licor PAR/Irradiance, and SBE 18 pH sensors. Profiles processed using SBE Data Processing.
EPA Townetting CTD casts
Access database containing all conductivity/temperature/depth (CTD) casts

Table of sites where water column profiles were collected during the 2011 Puget Sound surveys.
EPA Townetting CTD casts
Access database containing all conductivity/temperature/depth (CTD) casts

These data consist of nitrogen (nitrate-N, nitrite-N, and ammonium-N) concentrations (in microgram/liter) in three rivers and associated estuaries collected in 2011 and 2012 as part of project to examine the sources of nutrients and energy supporting commercial oyster beds. Oyster beds were located in the estuary near by the associated river mouth. These rivers including the Dosewallips, Hamma Hamma, and Samish. Details on study sites and objectives can be found in Conway-Cranos, L., P. Kiffney, N. Banas, J. Burke, M. Plummer, S. Naman*, R. Paranjpye , M. Strom, P. MacCready, J. Bucci, and M. Ruckelshaus. 2015. Estuarine organic matter sources subsidize shellfish beds in Puget Sound, WA, USA. Marine Ecology Progress Series 533: 15-28.
EPA oyster project: nitrogen in water.
Nitrogen nutrient data for three shellfish growing areas in the Puget Sound.

Table contains DNA fragment analyses of 7 monthly samplings between April and October 2011 of pelagic waters of Puget Sound, WA.
EPA2011 Microbial & nutrient database
Filemaker Pro database containing microbial abundance, heterotrophic production, chlorophyll a, and inorganic nutrients

Table contains results of 7 monthly samplings between April and October 2011 of pelagic waters of Puget Sound, WA.
EPA2011 Microbial & nutrient database
Filemaker Pro database containing microbial abundance, heterotrophic production, chlorophyll a, and inorganic nutrients

Table classifies ecological concerns for salmon in categories. We defined Ecological Concern as : Changes to the ecological conditions essential for maintaining the long-term viability of a given population of salmonids, which cause mortality, injury, reduced health or reduced reproduction. Published in 2012, in paper Hamm, D. E. 2012. Development and evaluation of a data dictionary to standardize salmonid habitat assessments in the Pacific Northwest. Fisheries 37: 6–18.
Ecological Concerns Data Dictionary
Data Dictionary

Chinook salmon egg to fry survival, development, and number of redds.
Egg to Fry
Egg to fry survival estimates

Chinook salmon egg to fry survival, percent fines, particle size, and scour depth.
Egg to Fry
Egg to fry survival estimates

This table contains analytical results of physiological and behavioral measurements in fish.
Electro-olfactograms
Electrophysiological recordings from the olfactory system of salmonids.

Species and subgroup specific counts for individual beach seine catches.
Elwha Master Datafile
Nearshore marine ecosystems (intertidal and shallow subtidal) play a key role in the life cycles of many forage fish and other commercially and ecologically important species, and have undergone extensive human modification including construction of bulkheads along the shore, erection of piers and docks, dredging and filling, removal of riparian vegetation, and pollution. Nearshore regions are also particularly susceptible to climate variability, extreme storm events, and sea level rise. Understanding the dynamics of the primary species utilizing these nearshore systems is critical to understanding the populations that inhabit this dynamic habitat and preserving their various ecosystem functions. Since 2006, we have monitored the species composition and relative abundance of nearshore fish, including salmonids and forage fish in the Central Strait of Juan de Fuca and extending into Puget Sound. Our primary goals are to describe population dynamics of the dominant forage fish species (Pacific herring, Surf smelt, and Pacific sand lance), and to evaluate responses of the nearshore fish community to dam removals on the Elwha River. We are working in the following areas: Elwha River dam removal response: 5 years of monitoring along 30+km of coastline in the Strait of Juan de Fuca prior to dam removal (2006-2011)and 5 years of post-dam removal monitoring through September 2017 (we did not sample in 2009 and 2013). Monthly beach seining April – October used for data collection. We are examining how different species and life stages of forage fish and salmonids respond to changes in nearshore habitat conditions and the effects of sediment changes resulting from dam removal on estuarine and near coastal biota. Forage fish population dynamics: The major focus of forage fish conservation efforts has been on managing fishing pressure to increase numbers. Less attention has been placed on other anthropogenic factors such as habitat loss, yet this has had extensive impacts in nearshore marine (intertidal and shallow subtidal) areas. We have evaluating spatial and temporal variability in the forage fish community associated with nearshore habitats over a 10-year period in the Strait of Juan de Fuca and relating patterns to local and regional factors This data is currently being combined with other datasets throughout Puget Sound and the Salish sea to give insight into possible drivers of recent regional collapses in Herring populations (such as Cherry Point). Findings are also documenting shifts in historical spawning beds, and giving a baseline for genetic work documenting the stock variability and potential threats to these single large or perhaps multiple small populations of Pacific herring Surf smelt and Pacific Sand lance These long-term data sets are the result of collaborative efforts between NOAA and tribal, state, and federal partners. These efforts are critical to understanding the importance of nearshore habitats to ecologically and commercially valuable fish species (including federally listed species) and will help with the development of fisheries management, coastal development, and restoration plans impacting the nearshore marine environment. For this project, the data was stored in .xls and access files.

Fish-specific information collected in the field.
Elwha Master Datafile
Nearshore marine ecosystems (intertidal and shallow subtidal) play a key role in the life cycles of many forage fish and other commercially and ecologically important species, and have undergone extensive human modification including construction of bulkheads along the shore, erection of piers and docks, dredging and filling, removal of riparian vegetation, and pollution. Nearshore regions are also particularly susceptible to climate variability, extreme storm events, and sea level rise. Understanding the dynamics of the primary species utilizing these nearshore systems is critical to understanding the populations that inhabit this dynamic habitat and preserving their various ecosystem functions. Since 2006, we have monitored the species composition and relative abundance of nearshore fish, including salmonids and forage fish in the Central Strait of Juan de Fuca and extending into Puget Sound. Our primary goals are to describe population dynamics of the dominant forage fish species (Pacific herring, Surf smelt, and Pacific sand lance), and to evaluate responses of the nearshore fish community to dam removals on the Elwha River. We are working in the following areas: Elwha River dam removal response: 5 years of monitoring along 30+km of coastline in the Strait of Juan de Fuca prior to dam removal (2006-2011)and 5 years of post-dam removal monitoring through September 2017 (we did not sample in 2009 and 2013). Monthly beach seining April – October used for data collection. We are examining how different species and life stages of forage fish and salmonids respond to changes in nearshore habitat conditions and the effects of sediment changes resulting from dam removal on estuarine and near coastal biota. Forage fish population dynamics: The major focus of forage fish conservation efforts has been on managing fishing pressure to increase numbers. Less attention has been placed on other anthropogenic factors such as habitat loss, yet this has had extensive impacts in nearshore marine (intertidal and shallow subtidal) areas. We have evaluating spatial and temporal variability in the forage fish community associated with nearshore habitats over a 10-year period in the Strait of Juan de Fuca and relating patterns to local and regional factors This data is currently being combined with other datasets throughout Puget Sound and the Salish sea to give insight into possible drivers of recent regional collapses in Herring populations (such as Cherry Point). Findings are also documenting shifts in historical spawning beds, and giving a baseline for genetic work documenting the stock variability and potential threats to these single large or perhaps multiple small populations of Pacific herring Surf smelt and Pacific Sand lance These long-term data sets are the result of collaborative efforts between NOAA and tribal, state, and federal partners. These efforts are critical to understanding the importance of nearshore habitats to ecologically and commercially valuable fish species (including federally listed species) and will help with the development of fisheries management, coastal development, and restoration plans impacting the nearshore marine environment. For this project, the data was stored in .xls and access files.

Follow up fish-specific information gathered in the lab.
Elwha Master Datafile
Nearshore marine ecosystems (intertidal and shallow subtidal) play a key role in the life cycles of many forage fish and other commercially and ecologically important species, and have undergone extensive human modification including construction of bulkheads along the shore, erection of piers and docks, dredging and filling, removal of riparian vegetation, and pollution. Nearshore regions are also particularly susceptible to climate variability, extreme storm events, and sea level rise. Understanding the dynamics of the primary species utilizing these nearshore systems is critical to understanding the populations that inhabit this dynamic habitat and preserving their various ecosystem functions. Since 2006, we have monitored the species composition and relative abundance of nearshore fish, including salmonids and forage fish in the Central Strait of Juan de Fuca and extending into Puget Sound. Our primary goals are to describe population dynamics of the dominant forage fish species (Pacific herring, Surf smelt, and Pacific sand lance), and to evaluate responses of the nearshore fish community to dam removals on the Elwha River. We are working in the following areas: Elwha River dam removal response: 5 years of monitoring along 30+km of coastline in the Strait of Juan de Fuca prior to dam removal (2006-2011)and 5 years of post-dam removal monitoring through September 2017 (we did not sample in 2009 and 2013). Monthly beach seining April – October used for data collection. We are examining how different species and life stages of forage fish and salmonids respond to changes in nearshore habitat conditions and the effects of sediment changes resulting from dam removal on estuarine and near coastal biota. Forage fish population dynamics: The major focus of forage fish conservation efforts has been on managing fishing pressure to increase numbers. Less attention has been placed on other anthropogenic factors such as habitat loss, yet this has had extensive impacts in nearshore marine (intertidal and shallow subtidal) areas. We have evaluating spatial and temporal variability in the forage fish community associated with nearshore habitats over a 10-year period in the Strait of Juan de Fuca and relating patterns to local and regional factors This data is currently being combined with other datasets throughout Puget Sound and the Salish sea to give insight into possible drivers of recent regional collapses in Herring populations (such as Cherry Point). Findings are also documenting shifts in historical spawning beds, and giving a baseline for genetic work documenting the stock variability and potential threats to these single large or perhaps multiple small populations of Pacific herring Surf smelt and Pacific Sand lance These long-term data sets are the result of collaborative efforts between NOAA and tribal, state, and federal partners. These efforts are critical to understanding the importance of nearshore habitats to ecologically and commercially valuable fish species (including federally listed species) and will help with the development of fisheries management, coastal development, and restoration plans impacting the nearshore marine environment. For this project, the data was stored in .xls and access files.

Data related to each set of the beach seine net: site, date, time, and environmental characteristics.
Elwha Master Datafile
Nearshore marine ecosystems (intertidal and shallow subtidal) play a key role in the life cycles of many forage fish and other commercially and ecologically important species, and have undergone extensive human modification including construction of bulkheads along the shore, erection of piers and docks, dredging and filling, removal of riparian vegetation, and pollution. Nearshore regions are also particularly susceptible to climate variability, extreme storm events, and sea level rise. Understanding the dynamics of the primary species utilizing these nearshore systems is critical to understanding the populations that inhabit this dynamic habitat and preserving their various ecosystem functions. Since 2006, we have monitored the species composition and relative abundance of nearshore fish, including salmonids and forage fish in the Central Strait of Juan de Fuca and extending into Puget Sound. Our primary goals are to describe population dynamics of the dominant forage fish species (Pacific herring, Surf smelt, and Pacific sand lance), and to evaluate responses of the nearshore fish community to dam removals on the Elwha River. We are working in the following areas: Elwha River dam removal response: 5 years of monitoring along 30+km of coastline in the Strait of Juan de Fuca prior to dam removal (2006-2011)and 5 years of post-dam removal monitoring through September 2017 (we did not sample in 2009 and 2013). Monthly beach seining April – October used for data collection. We are examining how different species and life stages of forage fish and salmonids respond to changes in nearshore habitat conditions and the effects of sediment changes resulting from dam removal on estuarine and near coastal biota. Forage fish population dynamics: The major focus of forage fish conservation efforts has been on managing fishing pressure to increase numbers. Less attention has been placed on other anthropogenic factors such as habitat loss, yet this has had extensive impacts in nearshore marine (intertidal and shallow subtidal) areas. We have evaluating spatial and temporal variability in the forage fish community associated with nearshore habitats over a 10-year period in the Strait of Juan de Fuca and relating patterns to local and regional factors This data is currently being combined with other datasets throughout Puget Sound and the Salish sea to give insight into possible drivers of recent regional collapses in Herring populations (such as Cherry Point). Findings are also documenting shifts in historical spawning beds, and giving a baseline for genetic work documenting the stock variability and potential threats to these single large or perhaps multiple small populations of Pacific herring Surf smelt and Pacific Sand lance These long-term data sets are the result of collaborative efforts between NOAA and tribal, state, and federal partners. These efforts are critical to understanding the importance of nearshore habitats to ecologically and commercially valuable fish species (including federally listed species) and will help with the development of fisheries management, coastal development, and restoration plans impacting the nearshore marine environment. For this project, the data was stored in .xls and access files.

Information on sampling sites for Strait of Juan de Fuca beach seining.
Elwha Master Datafile
Nearshore marine ecosystems (intertidal and shallow subtidal) play a key role in the life cycles of many forage fish and other commercially and ecologically important species, and have undergone extensive human modification including construction of bulkheads along the shore, erection of piers and docks, dredging and filling, removal of riparian vegetation, and pollution. Nearshore regions are also particularly susceptible to climate variability, extreme storm events, and sea level rise. Understanding the dynamics of the primary species utilizing these nearshore systems is critical to understanding the populations that inhabit this dynamic habitat and preserving their various ecosystem functions. Since 2006, we have monitored the species composition and relative abundance of nearshore fish, including salmonids and forage fish in the Central Strait of Juan de Fuca and extending into Puget Sound. Our primary goals are to describe population dynamics of the dominant forage fish species (Pacific herring, Surf smelt, and Pacific sand lance), and to evaluate responses of the nearshore fish community to dam removals on the Elwha River. We are working in the following areas: Elwha River dam removal response: 5 years of monitoring along 30+km of coastline in the Strait of Juan de Fuca prior to dam removal (2006-2011)and 5 years of post-dam removal monitoring through September 2017 (we did not sample in 2009 and 2013). Monthly beach seining April – October used for data collection. We are examining how different species and life stages of forage fish and salmonids respond to changes in nearshore habitat conditions and the effects of sediment changes resulting from dam removal on estuarine and near coastal biota. Forage fish population dynamics: The major focus of forage fish conservation efforts has been on managing fishing pressure to increase numbers. Less attention has been placed on other anthropogenic factors such as habitat loss, yet this has had extensive impacts in nearshore marine (intertidal and shallow subtidal) areas. We have evaluating spatial and temporal variability in the forage fish community associated with nearshore habitats over a 10-year period in the Strait of Juan de Fuca and relating patterns to local and regional factors This data is currently being combined with other datasets throughout Puget Sound and the Salish sea to give insight into possible drivers of recent regional collapses in Herring populations (such as Cherry Point). Findings are also documenting shifts in historical spawning beds, and giving a baseline for genetic work documenting the stock variability and potential threats to these single large or perhaps multiple small populations of Pacific herring Surf smelt and Pacific Sand lance These long-term data sets are the result of collaborative efforts between NOAA and tribal, state, and federal partners. These efforts are critical to understanding the importance of nearshore habitats to ecologically and commercially valuable fish species (including federally listed species) and will help with the development of fisheries management, coastal development, and restoration plans impacting the nearshore marine environment. For this project, the data was stored in .xls and access files.

List of species that could be caught in the Strait of Juan de Fuca, used as reference table for catch data.
Elwha Master Datafile
Nearshore marine ecosystems (intertidal and shallow subtidal) play a key role in the life cycles of many forage fish and other commercially and ecologically important species, and have undergone extensive human modification including construction of bulkheads along the shore, erection of piers and docks, dredging and filling, removal of riparian vegetation, and pollution. Nearshore regions are also particularly susceptible to climate variability, extreme storm events, and sea level rise. Understanding the dynamics of the primary species utilizing these nearshore systems is critical to understanding the populations that inhabit this dynamic habitat and preserving their various ecosystem functions. Since 2006, we have monitored the species composition and relative abundance of nearshore fish, including salmonids and forage fish in the Central Strait of Juan de Fuca and extending into Puget Sound. Our primary goals are to describe population dynamics of the dominant forage fish species (Pacific herring, Surf smelt, and Pacific sand lance), and to evaluate responses of the nearshore fish community to dam removals on the Elwha River. We are working in the following areas: Elwha River dam removal response: 5 years of monitoring along 30+km of coastline in the Strait of Juan de Fuca prior to dam removal (2006-2011)and 5 years of post-dam removal monitoring through September 2017 (we did not sample in 2009 and 2013). Monthly beach seining April – October used for data collection. We are examining how different species and life stages of forage fish and salmonids respond to changes in nearshore habitat conditions and the effects of sediment changes resulting from dam removal on estuarine and near coastal biota. Forage fish population dynamics: The major focus of forage fish conservation efforts has been on managing fishing pressure to increase numbers. Less attention has been placed on other anthropogenic factors such as habitat loss, yet this has had extensive impacts in nearshore marine (intertidal and shallow subtidal) areas. We have evaluating spatial and temporal variability in the forage fish community associated with nearshore habitats over a 10-year period in the Strait of Juan de Fuca and relating patterns to local and regional factors This data is currently being combined with other datasets throughout Puget Sound and the Salish sea to give insight into possible drivers of recent regional collapses in Herring populations (such as Cherry Point). Findings are also documenting shifts in historical spawning beds, and giving a baseline for genetic work documenting the stock variability and potential threats to these single large or perhaps multiple small populations of Pacific herring Surf smelt and Pacific Sand lance These long-term data sets are the result of collaborative efforts between NOAA and tribal, state, and federal partners. These efforts are critical to understanding the importance of nearshore habitats to ecologically and commercially valuable fish species (including federally listed species) and will help with the development of fisheries management, coastal development, and restoration plans impacting the nearshore marine environment. For this project, the data was stored in .xls and access files.

Intended to house observations of lower intertidal substrate properties.
Elwha Master Datafile
Nearshore marine ecosystems (intertidal and shallow subtidal) play a key role in the life cycles of many forage fish and other commercially and ecologically important species, and have undergone extensive human modification including construction of bulkheads along the shore, erection of piers and docks, dredging and filling, removal of riparian vegetation, and pollution. Nearshore regions are also particularly susceptible to climate variability, extreme storm events, and sea level rise. Understanding the dynamics of the primary species utilizing these nearshore systems is critical to understanding the populations that inhabit this dynamic habitat and preserving their various ecosystem functions. Since 2006, we have monitored the species composition and relative abundance of nearshore fish, including salmonids and forage fish in the Central Strait of Juan de Fuca and extending into Puget Sound. Our primary goals are to describe population dynamics of the dominant forage fish species (Pacific herring, Surf smelt, and Pacific sand lance), and to evaluate responses of the nearshore fish community to dam removals on the Elwha River. We are working in the following areas: Elwha River dam removal response: 5 years of monitoring along 30+km of coastline in the Strait of Juan de Fuca prior to dam removal (2006-2011)and 5 years of post-dam removal monitoring through September 2017 (we did not sample in 2009 and 2013). Monthly beach seining April – October used for data collection. We are examining how different species and life stages of forage fish and salmonids respond to changes in nearshore habitat conditions and the effects of sediment changes resulting from dam removal on estuarine and near coastal biota. Forage fish population dynamics: The major focus of forage fish conservation efforts has been on managing fishing pressure to increase numbers. Less attention has been placed on other anthropogenic factors such as habitat loss, yet this has had extensive impacts in nearshore marine (intertidal and shallow subtidal) areas. We have evaluating spatial and temporal variability in the forage fish community associated with nearshore habitats over a 10-year period in the Strait of Juan de Fuca and relating patterns to local and regional factors This data is currently being combined with other datasets throughout Puget Sound and the Salish sea to give insight into possible drivers of recent regional collapses in Herring populations (such as Cherry Point). Findings are also documenting shifts in historical spawning beds, and giving a baseline for genetic work documenting the stock variability and potential threats to these single large or perhaps multiple small populations of Pacific herring Surf smelt and Pacific Sand lance These long-term data sets are the result of collaborative efforts between NOAA and tribal, state, and federal partners. These efforts are critical to understanding the importance of nearshore habitats to ecologically and commercially valuable fish species (including federally listed species) and will help with the development of fisheries management, coastal development, and restoration plans impacting the nearshore marine environment. For this project, the data was stored in .xls and access files.

This is a table of raw microsatellite genotypes for Onchorhynchus mykiss (both steelhead and rainbow trout) in the Elwha River watershed, WA, where each locus is represented by two alleles, 3 digits for each allele, where alleles are mobility/size determined, per standard published criteria. Loci are described in Winans et al. 2014. Conservation Genetics. 10.1007/s10592-014-0659-z. Data are grouped by collections. Each collection is separated by "pop." The first individual in a collection has an abbreviation for its collection name. They are in order: (rainbow trout collections) Delabarre, Chicago, Camp Wilder, Camp Wilder, Hayes ,Elkhorn, Geyser, Geyser, Cat, Whiskey Bend, Altaire, Griff Cr., Griff Cr., Madison Cr., Side Channel, Little R., Reservoir, S. Branch Little R., S. Branch Little R., (Steelhead collections), Brood Year 05, Brood Year 06, Brood Year 07, Brood Year 08, Brood Year 09, Brood Year 10, Brood Year 11, LEKT Hatchery, LEKT Hatchery, (Hatchery trout), Goldendale trout, Spokane trout.
Elwha genetics
Genetic data

Invertebrate drift samples collected from Elwha River before and during dam removal.
ElwhaChemical
Elwha dam removal monitoring, chemical data

Stomach contents of juvenile trout (Oncorhynchus spp.) collected from Elwha River before and during dam removal
ElwhaChemical
Elwha dam removal monitoring, chemical data

Elwha dam removal monitoring, chemical data.
ElwhaChemical
Elwha dam removal monitoring, chemical data

This table describes data associated with each English sole collected in Puget Sound in 2010 and 2011.
English sole 2010-2011
Somatic growth, otolith chemistry, and toxilogical data

This table contains analytical results of physiological and behavioral measurements in fish exposed to pesticides and other chemicals.
Enzyme activity
Measurements from salmonids of enzyme activity following exposure to pesticides.

Abundance and size of fish caught in Columbia estuary.
Estuary fish data
Abundance and size of fish caught in Columbia estuary

Descriptions of stock origins used for sample comparison and genetic identification.
Estuary-wide genetic stock distribution and salmon habitat use, tidal-fluvial estuary
Bimonthly genetic stock group distribution for juvenile Chinook Salmon collected from 3 habitats each from 6 tidal-fluvial estuary reaches and monthly fish species composition, abundance, and length:weight; Chinook salmon life history and genetic stock ID

Columbia River estuary-wide genetic stock distribution and salmon habitat use within the tidal-fluvial estuary.
Estuary-wide genetic stock distribution and salmon habitat use, tidal-fluvial estuary
Bimonthly genetic stock group distribution for juvenile Chinook Salmon collected from 3 habitats each from 6 tidal-fluvial estuary reaches and monthly fish species composition, abundance, and length:weight; Chinook salmon life history and genetic stock ID

Descriptions of gear used to collect samples.
Estuary-wide genetic stock distribution and salmon habitat use, tidal-fluvial estuary
Bimonthly genetic stock group distribution for juvenile Chinook Salmon collected from 3 habitats each from 6 tidal-fluvial estuary reaches and monthly fish species composition, abundance, and length:weight; Chinook salmon life history and genetic stock ID

Lookup table for species with common and scientific name and the measurement type.
Estuary-wide genetic stock distribution and salmon habitat use, tidal-fluvial estuary
Bimonthly genetic stock group distribution for juvenile Chinook Salmon collected from 3 habitats each from 6 tidal-fluvial estuary reaches and monthly fish species composition, abundance, and length:weight; Chinook salmon life history and genetic stock ID

Sample site name and location description, includes latitude and longitude for some sites.
Estuary-wide genetic stock distribution and salmon habitat use, tidal-fluvial estuary
Bimonthly genetic stock group distribution for juvenile Chinook Salmon collected from 3 habitats each from 6 tidal-fluvial estuary reaches and monthly fish species composition, abundance, and length:weight; Chinook salmon life history and genetic stock ID

This data contains analytical results from a 2 by 2 factorial experiment where salmon carcasses or small wood were added to stream mesocosms. Experiment conducted over a 45 day period summer 2007. Experimental streams were located along the bank of the Cedar River near Landsbug Dam, WA. Included in this table are data on water chemistry and benthic invertebrates colonizing unglazed ceramic tiles. The experiment was designed to test the effects of adding 0.6 kg/m2 of carcass tissue and small wood on water chemistry and invertebrates. Water chemistry samples were analyzed at the Oceanography lab, University of Washington. Benthic invertebrates were identifed to family or order using a dissecting scope.
Experimental streams
Data on nutrients and insects to salmon carcass additions

formulation and nutritional composition of experimental feeds.
Feed formulations
MS Excel spreadheet

Replicate of EDC FR cost view
First Receiver and Shorebased Processor Data
Cost earnings data for first receiver and shorebased processor data

Replicate of EDC FR employment view
First Receiver and Shorebased Processor Data
Cost earnings data for first receiver and shorebased processor data

Replicate of EDC FR purchase product view
First Receiver and Shorebased Processor Data
Cost earnings data for first receiver and shorebased processor data

Replicate of EDC FR revenue view
First Receiver and Shorebased Processor Data
Cost earnings data for first receiver and shorebased processor data

This table contains water temperature recordings for experimental tanks at the NWFSC Manchester Lab.
Fish Culture Data
Raw data on rearing densities, tanks, water temperature, mortalities, ration and feed size may be available.

Fish culture data from the Redfish Lake Idaho Sockeye Salmon captive broodstock study from 2000-2010.
Fish Culture data
Raw data on rearing density, loading density, water temperature, ration, and feed size may be available. Raw data on administration of therapeutic drugs may be available.

Habitat and snorkel counts of fish.
Fish abundance, composition, distribution
Density and distribution of resident trout and Pacific salmon during summer, spring and fall in main stem and tributary habitat

Details of sites sampled.
Fish and logger summaries
Excel datasheets of fish and logger summaries

Summary of physical parameters and fish counts.
Fish and logger summaries
Excel datasheets of fish and logger summaries

recorded fish weights, feed consumed, feed efficiencies, and fish nutritional composition.
Fish weights
MS Excel spreadsheet

Fisheries Online Information System trawl species.
Fisheries Online Information System
The database stores data from ongoing field collections made by the OSU Fisheries Oceanography Research Team in collaboration with NOAA Fisheries. Field activities include plankton tows, benthic beam trawls, water column hydrographic profiles, and in-situ video observations of fish behavior.

Fisheries Online Information System conductivity, temperature, and depth data.
Fisheries Online Information System
The database stores data from ongoing field collections made by the OSU Fisheries Oceanography Research Team in collaboration with NOAA Fisheries. Field activities include plankton tows, benthic beam trawls, water column hydrographic profiles, and in-situ video observations of fish behavior.

Trophic impacts of bald eagles in the Puget Sound food web model output fish biased.
Food web model output
Spreadsheet

Trophic impacts of bald eagles in the Puget Sound food web model output seabird biased.
Food web model output
Spreadsheet

Reach numbers and attributes for the Trinity River from Lewiston Dam downstream to the North Fork Trinity River, California.
Geomorphic Analysis
Database of stream reach attributes

Reach names and attributes for channel pattern reference sites in Washington State, USA.
Geomorphic Analysis
Database of stream reach attributes

Specific Growth rate of Farmed Macroalgae.
Growth
growth data

Elwha Pink Salmon Growth Data.
Growth Data
The fork length to the nearest mm and weight to the nearest gram of a subsample of fish is recorded on an approximately quarterly basis.

This table contains fish size at time and sampling schedule for sablefish.
Growth data
Fish in experiments may be PIT tagged and regularly checked for growth in length and weight

Growth data from the Redfish Lake Idaho Sockeye Salmon captive broodstock study from 2000-2010.
Growth data
The fork length to the nearest mm and weight to the nearest gram of a subsample of fish is recorded on an approximately quarterly basis.

This table contains body size data for sablefish during the grow-out phase following a sex control experiment.
Growth data
Fish in experiments are often PIT tagged and regularly checked for growth in fork length and body weight.

Understanding the factors influencing the success of juvenile Pacific salmon Oncorhynchus spp. in newly colonized habitats is essential to their recovery in large areas across theWest Coast of the United States and Canada.We studied biotic and abiotic factors associated with survival during the early stages of colonization and population establishment of juvenile coho salmon O. kisutch in Rock Creek, a tributary of the upper Cedar River in the LakeWashington basin of Puget Sound, Washington. The stream was occupied by resident fishes (e.g., rainbow trout O. mykiss, cutthroat trout O. clarkii, speckled dace Rhinichthys osculus, and several sculpins Cottus spp.), but adult coho salmon and other anadromous fishes had been excluded by a dam from 1901 until fish ladder installation in 2003. We defined logistic regression models and used an information-theoretic approach to predict apparent survival with various combinations of individual fish condition, location competition, and local habitat quality. The best-approximating models included measures of brood year, body size, habitat, and migration timing. Survival was positively associated with body size and habitat quality and negatively associated with competition. Survival from late summer to smolt migration varied among years (mean ± SD = 27 ± 11%) and was significantly higher within Rock Creek (73 ± 11%) than during seaward migration in the Cedar River and Lake Washington (38 ± 14%). Juvenile coho salmon established a population and outnumbered resident salmonid species by 40% in the lower 2 km of Rock Creek within 5 years of colonization. Overall, the results revealed the linkage between the colonization success of juvenile coho salmon and the biotic features and habitat quality in a newly accessible environment during the stream-rearing phase of their life history. DOI: 10.1080/00028487.2011.587752.
Growth, movement and survival
PIT data of juvenile coho and resident trout in Rock Creek

Understanding the factors influencing the success of juvenile Pacific salmon Oncorhynchus spp. in newly colonized habitats is essential to their recovery in large areas across theWest Coast of the United States and Canada.We studied biotic and abiotic factors associated with survival during the early stages of colonization and population establishment of juvenile coho salmon O. kisutch in Rock Creek, a tributary of the upper Cedar River in the LakeWashington basin of Puget Sound, Washington. The stream was occupied by resident fishes (e.g., rainbow trout O. mykiss, cutthroat trout O. clarkii, speckled dace Rhinichthys osculus, and several sculpins Cottus spp.), but adult coho salmon and other anadromous fishes had been excluded by a dam from 1901 until fish ladder installation in 2003. We defined logistic regression models and used an information-theoretic approach to predict apparent survival with various combinations of individual fish condition, location competition, and local habitat quality. The best-approximating models included measures of brood year, body size, habitat, and migration timing. Survival was positively associated with body size and habitat quality and negatively associated with competition. Survival from late summer to smolt migration varied among years (mean ± SD = 27 ± 11%) and was significantly higher within Rock Creek (73 ± 11%) than during seaward migration in the Cedar River and Lake Washington (38 ± 14%). Juvenile coho salmon established a population and outnumbered resident salmonid species by 40% in the lower 2 km of Rock Creek within 5 years of colonization. Overall, the results revealed the linkage between the colonization success of juvenile coho salmon and the biotic features and habitat quality in a newly accessible environment during the stream-rearing phase of their life history. DOI: 10.1080/00028487.2011.587752.
Growth, movement and survival
PIT data of juvenile coho and resident trout in Rock Creek

Table B2 , Biomass outputs from: Ainsworth, C.H., Kaplan, I.C., Levin, P.S., Cudney Bueno, R., Fulton,E.A., Mangel,M., Turk-Boyer, M., Torre Cosio, J., Pares Sierra, A., Morzaria Luna, H.. 2011. Atlantis model development for the Northern Gulf of California. U.S. Dept. Commer., NOAA Tech. Memo. NMFS-NWFSC-110. Available online: http://www.nwfsc.noaa.gov/assets/25/ 7784_08012011_125850_AtlantisModelTM110WebFinal.pdf
Gulf of California species and catch spatial distributions and historical time series
Available online as appendices: NOAA Tech. Memo., NMFS-NWFSC-110

Change in habitat quantity restoration.
Habitat Analysis
Database of habitat capacity estimates

Chinook and Steelhead Capacity Estimates by Size Class.
Habitat Analysis
Database of habitat capacity estimates

Depth Histogram for Steelhead and Chinook Salmon by size class.
Habitat Analysis
Database of habitat capacity estimates

Estimated v. Actual Chinook Smolt Production.
Habitat Analysis
Database of habitat capacity estimates

Fish size class outmigrants.
Habitat Analysis
Database of habitat capacity estimates

Habitat Feature Matrix and associated Fish Density by Species and Life Stage.
Habitat Analysis
Database of habitat capacity estimates

Instream Habitat Capacity by Stream Reach.
Habitat Analysis
Database of habitat capacity estimates

Pre v. post Chinook salmon smolts.
Habitat Analysis
Database of habitat capacity estimates

Groundfish Essential Fish Habitat (EFH) and Habitat Use Database (HUD)
Habitat Use Database
2005 habitat-use analysis supporting groundfish EFH.

Estimation of habitat capacity for Chinook salmon in the Sacramento delta and San Francisco Bay, using hydrologic outputs for three scenarios run for the California Waterfix. Details on methods of capacity estimation can be found in Hendrix et al. 2012 (NOAA Tech memo NMFS-SWFSC-530).
Habitat capacity for Sacramento delta
Results of GIS models of habitat capacity for Sacramento Winter run Chinook salmon

Estimation of habitat capacity for Chinook salmon in the Sacramento delta and San Francisco Bay, using hydrologic outputs for three scenarios run for the California Waterfix. Details on methods of capacity estimation can be found in Hendrix et al. 2012 (NOAA Tech memo NMFS-SWFSC-530).
Habitat capacity for Sacramento delta
Results of GIS models of habitat capacity for Sacramento Winter run Chinook salmon

Estimation of habitat capacity for Chinook salmon in the Sacramento delta and San Francisco Bay, using hydrologic outputs for three scenarios run for the California Waterfix. Details on methods of capacity estimation can be found in Hendrix et al. 2012 (NOAA Tech memo NMFS-SWFSC-530).
Habitat capacity for Sacramento delta
Results of GIS models of habitat capacity for Sacramento Winter run Chinook salmon

Data collected from CPODs.
Harbor porpoise
Passive acoustic monitoring

Table contains data collected from 2006-2015 as part of the Hood Canal Steelhead Project. Data was collected on 8 rivers in the Hood Canal primarily from screw (smolt) traps and summer hook and line sampling for parr. Also included are some adult steelhead sampling data from tribal gill nets. It include length, weight, and age data primarily.
Hood Canal Steelhead
Project data, parr and smolt data set from 2007-2015

Bacterial community profiling at sewage treatment plant outfalls in Penn Cove & Saratoga Passage in the Whidbey Basin, WA from April 2010 to August 2011
IGP2010 microbial
FileMaker Pro of field & lab analyses

The Status and Effectiveness Monitoring Databank (STEM Databank) stores monitoring data collected through the Integrated Status and Effectiveness Monitoring Program (ISEMP) and associated programs.
ISEMP
fish

This table contains cruise and catch data from NWFSC prerecruit survey plankton tows for the years 2011, 2013, 2014, and 2015.
Ichthyoplankton Data
We towed a 71 cm diameter Bongo net at each trawl station from 100 m to the surface

Tag details for PIT tagged fish detected in estuary wetland channels from juvenile salmon.
In-stream PIT detection, estuary wetlands
PIT detection data (residence time, travel time) in estuary wetland channels from juvenile salmon tagged by this project and other projects.

Downloaded data for PIT tagged fish detected in estuary wetland channels from juvenile salmon.
In-stream PIT detection, estuary wetlands
PIT detection data (residence time, travel time) in estuary wetland channels from juvenile salmon tagged by this project and other projects.

These data consist of natural abundance levels of C and N stable isotopes in periphyton, in-stream leaf detritus, leaves of riparian plants, benthic invertebrates, and resident fish collected from multiple locations from the main stem Cedar River, and tributaries including Rock and Taylor creeks. Data were collected in 2000 and 2001 to establish baseline conditions before reintroduction of Pacific salmon in 2003. Data were analyzed at the University of Georgia Stable Isotope Facility.
Isotopes
C and N isotope levels in plants, insects and fish in the Cedar River

This table contains raw detections of jellyfish tagged in the Puget Sound.
Jellyfish movement data
This data set contains acoustic telemetry data for lions mane and fried egg jellyfish.

This table contains cruise and catch data from NWFSC prerecruit survey trawls for the years 2011, 2013, 2014, and 2015.
Juvenile Fish Data
We towed a Cobb Trawl at 30 m at all stations

This table contains cruise and haul data from NWFSC prerecruit survey trawls for the years 2011, 2013, 2014, and 2015.
Juvenile Fish Data
We towed a Cobb Trawl at 30 m at all stations

Metrics for Salmon Collected in Ocean Salmon Surveys.
Juvenile Salmonid Metrics
Lab Lengths, weight, genetics, IGF-1 (growth), and otolith microchemistry from juvenile salmonids

Trophically Transmitted Parasite Data for Juvenile Salmon collected in Ocean Salmon Surveys.
Juvenile Salmonid Parasite Data
Data on Parasite communities in juvenile Chinook salmon, Coho salmon, and steelhead

Stomach Contents of Juvenile Salmon Collected in Ocean Salmon Surveys.
Juvenile Salmonid Trophic Data
Stomach Contents from juvenile salmonids, primarily Chinook and Coho

The oxygen transfer coefficient (KLa) was determined by deaeration with nitrogen gas followed by aeration (0.60 slpm) using a YSI ProODO dissolved oxygen meter.
KLA
The oxygen transfer coefficient (KLa) will be determined by deaeration with nitrogen gas followed by aeration (0.60 slpm) using a YSI ProODO dissolved oxygen meter. The KLa value will be computed from the ASCE Standard for the Measurement of Oxygen Transfer in Clean Water http://cedb.asce.org/cgi/WWWdisplay.cgi?156576 The measured KLa values will be reported at 20C using a theta = 1.047.

Table of multi-locus microsatellite and single nucleotide polymorphism (SNP) genotypes collected from southern resident killer whales.
Killer Whale Genetic Data
Microsatellite, SNP, and mtDNA sequence data from southern resident killer whales

This table describes data associated with each Chinook salmon collected from the Columbia River 2005-2013.
LCREP growth rates
Growth rates of chinook salmon from Lower Columbia sites estimated from otolith analyses.

Lewis River Steelhead Reintroduction
Lewis Steelhead Genetics
Lewis River rainbow trout genetics.

This experiment compared the effect of indoor and outdoor lighting on the reproductive characteristics of sockeye salmon reared in a captive broodstock program. Indoor lighting was a mixture of natural lighting filtering through windows and artificial overhead lighting. Outdoor lighting was the product of sunlight passing through a translucent cover on the roof of a tensioned fabric greenhouse structure. Outdoor lighting in the greenhouse was about 80% of ambient sunlight and was about three orders of magnitude higher than the mixed lighting occurring inside the pole building. Fish in both experimental treatments were reared in identical indoor conditions from incubation to the time they would have naturally have reentered freshwater on their return migration from the sea. Maturing fish identified in maturity sorts conducted in late June-early July of each study year were systematically sorted into the two experimental treatments and stocked into the experimental raceways at Burley Creek Hatchery. In 2007, 2008, 2009, 2010 and 2011 these maturing fish were divided into eight similar groups with four groups being stocked into inside raceways and four groups being stocked into outside raceways. Data is also supplied for 2006 when only two inside and six outside raceways were available for the study. Except for lighting the fish were reared and handled similarly. When they were spawned in October and November all adults were assessed for fork length, weight, and ELISA values. The Julian date females spawned as well as the average weight of their green eggs (developed from an individual 10 egg weight sample), total green egg weight, and overall fecundity were determined and recorded. Males were assessed weekly for sperm production with the Julian Date of their first motile milt production recorded, along with their spermatocrit, and slaughtered milt weight. As each female's eggs were split in two lots and fertilized by two different males survival to eye (viability) is based on average survival of the two lots. This average viability was determined for both sexes.
Light Experiment data
This work collected data on the length, weight, and reproductive characteristics of sockeye salmon reared in outside and inside tanks.

This file contains the biological data for lingcod in the tagging study. Tagging was done in two waves (Summer 2006 and Summer 2008). Data are the x-y position of individual fish within the tracking array (XPOS, YPOS) or latitude and longitude of the fish's position at a specific time. The relocations of fixed pingers are included to allow for the removal the effects of tides, which move the receiver buoys. See Tolimieri, N., K. Andrews, G. Williams, S. Katz, and P. S. Levin. 2009. Home range size and patterns of space use by lingcod, copper rockfish and quillback rockfish in relation to diel and tidal cycles. Marine Ecology Progress Series 380:229-243 and See Andrews, K. S., N. Tolimieri, G. D. Williams, J. F. Samhouri, C. J. Harvey, and P. S. Levin. 2011. Comparison of fine-scale acoustic monitoring systems using home range size of a demersal fish. Marine Biology 158:2377-2387 for more detail.
Lingcod data
Acoustic telemetry data for lingcod

This file contains the result of a lingcod tagging/tracking study conducted using VEMCO acoustic tracking equipment. Tagging was done in two waves (Summer 2006 and Summer 2008). Data are the x-y position of individual fish within the tracking array (XPOS, YPOS) or latitude and longitude of the fish's position at a specific time. The relocations of fixed pingers are included to allow for the removal the effects of tides, which move the receiver buoys. See Tolimieri, N., K. Andrews, G. Williams, S. Katz, and P. S. Levin. 2009. Home range size and patterns of space use by lingcod, copper rockfish and quillback rockfish in relation to diel and tidal cycles. Marine Ecology Progress Series 380:229-243 and See Andrews, K. S., N. Tolimieri, G. D. Williams, J. F. Samhouri, C. J. Harvey, and P. S. Levin. 2011. Comparison of fine-scale acoustic monitoring systems using home range size of a demersal fish. Marine Biology 158:2377-2387 for more detail.
Lingcod data
Acoustic telemetry data for lingcod

Site names, coordinates, dates and times that water samples were collected for analysis of three Azadinium species as well as the family Amphidomataceae. Cell enumeration results are included for the three Azadinium species (A. spinosum, A. poporum and A. obesum) as determinted by real-time quantitative PCR using TaqMan probe assays. Additionally, the results of a SYBR green based quantitative PCR assay are included that indicate whether or not members of the family Amphidomataceae are present in a water sample.
Lipophilic Toxins in WA
Contains information regarding toxin producing species and toxin measurements in shellfish and seawater samples. Also includes associated environmental data.

Site names, coordinates, dates, and times that shellfish samples were collected for lipophilic marine toxin analyses. The results liquid chromatography with tandem mass spectroscopy (LC-MS/MS) analyses for the toxins (okadaic acid, dinophysis toxin 1, dinophysis toxin 2, azaspiracids 1, azaspiracid 2, azaspiracid 3, as well as total OA equivalents) are included. Additionally, the results of a screening assay for lipophilic toxins (PP2A) that detects okadaic acid and the dinophysis toxins are included.
Lipophilic Toxins in WA
Contains information regarding toxin producing species and toxin measurements in shellfish and seawater samples. Also includes associated environmental data.

Master table of all datasets collected as part of Elwha River carcass addition experiment.
Master Dataset for Elwha Carcass Addition Experiment
All datasets related to Elwha River carcass addition experiment. Includes physical habitat, chemical, and biological data.

Data for all PIT tagged age-1 and age-2 steelhead released from Winthrop National Fish Hatchery for release years 2010 through 2015.
Methow River Steelhead
PIT tag data for age-1 and age-2 steelhead smolts released from Winthrop National Fish Hatchery for release years 2010-2015.

Names of crew members.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

Lists different types of gear potentially used.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

Table with information on sample sites.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

Table with site specific information like sample date, Time, effort, gear, and physical data like water temperature and dissolved oxygen (DO), plus any other comments about the sample.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

List of species potenitally caught.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

Definitions for tag codes.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

Codes for various types of tag and mark combinations.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

Catch data from beach seining associated with Metro project.
Metro Multnomah Wetlands
Species abundance, length, weight, residence time data for juvenile salmon in main stem Columbia R, Multnomah Channel. Mark and recapture data.

Data showing whether lingcod were detected in mobile tracking.
Mobile acoustic telemetry data
Data from mobile Vemco VR28 acoustic hydrophone array towed behind a boat in South Puget Sound. Contains detections of hatchery lingcod.

Table A3 , Life History data from: Ainsworth, C.H., Kaplan, I.C., Levin, P.S., Cudney Bueno, R., Fulton,E.A., Mangel,M., Turk-Boyer, M., Torre Cosio, J., Pares Sierra, A., Morzaria Luna, H.. 2011. Atlantis model development for the Northern Gulf of California. U.S. Dept. Commer., NOAA Tech. Memo. NMFS-NWFSC-110. Available online: http://www.nwfsc.noaa.gov/assets/25/ 7784_08012011_125850_AtlantisModelTM110WebFinal.pdf.
Model outputs
Outputs of Atlantis model scenarios

Replicate of EDC Mothership view
Mothership Cost Earnings Data
Cost earnings data for motherships

Daily measures of pH, temperature and salinity of the seawater intake at the NOAA NWFSC Mukilteo Field Station (802 Front Street, Mukilteo, WA 98275). Seawater is pumped from ~50m off shore at a depth of ~10m. Measurements are taken in 4’ diameter flow through animal rearing tank in the “salmon shed” research lab after the water has been sand filtered. The measurement tank contains less than 100g added biomass.
Mukilteo water sensor time series
Time series of water sensor measurements collected from the NWFSC Mukilteo pier and facility intake. Measurements include pCO2, pH, temp, salinity, DO. Set to start online winter 2012-13

Ocean acidification species exposure experimental facility
NWFSC OA facility water chemistry
Database of pH and other water chemistry measurements from the NWFSC OA experimental system

Environmental Data Associated with NCC Surveys.
Newport Hydrographic Line
High-frequency oceanographic cruises, as described in the "Project Description".

Chlorophyll Data Associated with NCC Surveys.
Newport Hydrographic Line
High-frequency oceanographic cruises, as described in the "Project Description".

Nutrient Data Associated with NCC Surveys.
Newport Hydrographic Line
High-frequency oceanographic cruises, as described in the "Project Description".

Zooplantkon Densities in the Vertical Net from NCC Surveys.
Newport Hydrographic Line
High-frequency oceanographic cruises, as described in the "Project Description".

This table contains time series data for numerous human activity data sets associated with the California Current Integrated Ecosystem Assessment.
Non fisheries threats
Non fisheries threats

Research on the effects of ocean acidification, climate change, and deoxygenation on marine organisms
OA Experimental Results
Ocean acidification experimental results for Dungeness crab, China rockfish, Pacific herring, bivalves, krill, and other species

Environmental Data Associated with Ocean Trawl Surveys.
Ocean CTD Chlorophyll Nutrient Data
Conductivity, temperature, depth (CTD) casts and Chlorophyll and Nutrients

Genetics and genomics of response to ocean acidification - Dungeness Crab
Ocean acidification genetics
Genetics and traits

Genetics and genomics of response to ocean acidification - Lipids
Ocean acidification genetics
Genetics and traits

Bycatch reduction oceanographic details
Oceanographic Data
Temperature and light radiance

Junveile Salmon and Associated Nekton Captured in Ocean Salmon Surveys.
Oceanographic Trawl Data
Nekton and juvenile salmon collections from surface trawl

Over one half of the worlds fish production for human consumption currently comes from aquaculture, while wild fisheries yields are either stable or declining. Recurring threats from the raphidophyte, Heterosigma akashiwo Hada (Sournia) have caused extensive damage ($2-6 million per episode) to wild and net-penned fish of Puget Sound, Washington, and are believed to be increasing in scope and magnitude in this region, and elsewhere in the world over the past two decades. The mechanism of H. akashiwo toxicity is not well understood. The toxic activity of H. akashiwo has been attributed to the production of reactive oxygen species, brevetoxin-like compound(s), excessive mucus, or hemolytic activity; however these mechanisms are not confirmed consistently in all fish-killing events or cultured strains. The difficulty of conducting research with active, toxin-producing field populations of H. akashiwo have resulted in conflicting findings from those obtained in lab culture studies, thereby limiting the ability of fish farmers to respond to these episodic blooms. Collaborators in this project are: Vera Trainer (NWFSC), William Cochlan (San Francisco State University), Charles Trick (University of Western Ontario), and Mark Wells (University of Maine). The overall goal of this project is to identify the primary toxic element and the specific environmental factors that stimulate fish-killing H. akashiwo blooms, and thereby provide managers with the fundamental tools needed to help reduce the frequency and toxic magnitude of these harmful algal events. Studies to date have provided incomplete and conflicting observations on the mode of toxicity and the environmental stimulation of toxification. We propose a three-pronged approach to study the environmental controls of H. akashiwo growth and toxin production; laboratory culture experiments, field observations, and bottle and mesocosm manipulation experiments.The project objectives are to: 1. identify the element(s) of toxic activity (inorganic, organic, or synergistic) associated with blooms of H. akashiwo and the various cellular morphologies of this alga, 2. determine the environmental parameters that stimulate the growth success and expression of cell toxicity in the H. akashiwo populations of Puget Sound. Because previous studies have used H. akashiwo cultures with little or no toxic activity, our approach is to use a living laboratory to study H. akashiwo bloom ecology and toxicity using natural assemblages. Using a mobile lab at field sites where H. akashiwo cells are regularly found will enable us to fully characterize the toxic element(s) responsible for fish mortality, and the environmental factors influencing toxicity. Findings from annual field studies in June and two rapid response deployments during major bloom events will be confirmed using laboratory studies with fresh ( 6 mo. old) isolates. The expected results are: 1. determination of the key elements of toxicity of H. akashiwo, 2. characterization of the environmental variables that influence either the induction or depression of elements of toxic activity in H. akashiwo, 3. characterization of environmentally-induced metabolites corresponding to condition of toxin production (metabolomics) and 4. design of a strategy for realistic mitigation of H. akashiwo activities in Puget Sound, Washington. This is a stand-alone project funded for 3 years through the NOAA/NSF ECOHAB program.
Oceanographic and physiological parameters relating to Heterosigma akashiwo in Puget Sound
Contains oceanographic parameters such as temperature, salinity, density, fluorescence and nutrient concentrations. Also contains information on the toxic elements of Heterosigma akashiwo and physiological conditions related to observed toxic effects.

Over one half of the worlds fish production for human consumption currently comes from aquaculture, while wild fisheries yields are either stable or declining. Recurring threats from the raphidophyte, Heterosigma akashiwo Hada (Sournia) have caused extensive damage ($2-6 million per episode) to wild and net-penned fish of Puget Sound, Washington, and are believed to be increasing in scope and magnitude in this region, and elsewhere in the world over the past two decades. The mechanism of H. akashiwo toxicity is not well understood. The toxic activity of H. akashiwo has been attributed to the production of reactive oxygen species, brevetoxin-like compound(s), excessive mucus, or hemolytic activity; however these mechanisms are not confirmed consistently in all fish-killing events or cultured strains. The difficulty of conducting research with active, toxin-producing field populations of H. akashiwo have resulted in conflicting findings from those obtained in lab culture studies, thereby limiting the ability of fish farmers to respond to these episodic blooms. Collaborators in this project are: Vera Trainer (NWFSC), William Cochlan (San Francisco State University), Charles Trick (University of Western Ontario), and Mark Wells (University of Maine). The overall goal of this project is to identify the primary toxic element and the specific environmental factors that stimulate fish-killing H. akashiwo blooms, and thereby provide managers with the fundamental tools needed to help reduce the frequency and toxic magnitude of these harmful algal events. Studies to date have provided incomplete and conflicting observations on the mode of toxicity and the environmental stimulation of toxification. We propose a three-pronged approach to study the environmental controls of H. akashiwo growth and toxin production; laboratory culture experiments, field observations, and bottle and mesocosm manipulation experiments.The project objectives are to: 1. identify the element(s) of toxic activity (inorganic, organic, or synergistic) associated with blooms of H. akashiwo and the various cellular morphologies of this alga, 2. determine the environmental parameters that stimulate the growth success and expression of cell toxicity in the H. akashiwo populations of Puget Sound. Because previous studies have used H. akashiwo cultures with little or no toxic activity, our approach is to use a living laboratory to study H. akashiwo bloom ecology and toxicity using natural assemblages. Using a mobile lab at field sites where H. akashiwo cells are regularly found will enable us to fully characterize the toxic element(s) responsible for fish mortality, and the environmental factors influencing toxicity. Findings from annual field studies in June and two rapid response deployments during major bloom events will be confirmed using laboratory studies with fresh ( 6 mo. old) isolates. The expected results are: 1. determination of the key elements of toxicity of H. akashiwo, 2. characterization of the environmental variables that influence either the induction or depression of elements of toxic activity in H. akashiwo, 3. characterization of environmentally-induced metabolites corresponding to condition of toxin production (metabolomics) and 4. design of a strategy for realistic mitigation of H. akashiwo activities in Puget Sound, Washington. This is a stand-alone project funded for 3 years through the NOAA/NSF ECOHAB program.
Oceanographic and physiological parameters relating to Heterosigma akashiwo in Puget Sound
Contains oceanographic parameters such as temperature, salinity, density, fluorescence and nutrient concentrations. Also contains information on the toxic elements of Heterosigma akashiwo and physiological conditions related to observed toxic effects.

Integrated acoustic and trawl survey of Pacific hake off the Pacific Coast - CTD
Oceanographic data
Oceanographic data collected from CTDs, XBTs, SBEs, and the ADCP

Integrated acoustic and trawl survey of Pacific hake off the Pacific Coast - UCTD
Oceanographic data
Oceanographic data collected from CTDs, XBTs, SBEs, and the ADCP

This table describes data associated with each Snake River fall chinook salmon collected from Lyons Ferry Hatchery in 2011.
Otolith output
Images, increment measurements, and microchemistry trajectories

Oxygen uptake of hauling water samples were determined from the change in dissolved oxygen over a 30 minute period using a YSI ProODO dissolved oxygen meter. Oxygen uptake was determined by fitting a linear regression line through the dissolved oxygen compared to time curve and expressed as mg/minute.
Oxygen Uptake
Oxygen uptake of hauling water samples will be determined from the change in dissolved oxygen over a 30 minute period using a YSI ProODO dissolved oxygen meter. Sample will be stirred using a magnetic rod. Oxygen uptake will be determined by fitting a linear regression line through the dissolved oxygen vs time curve and expressed as mg/minute. The oxygen uptake rate will be reported at 20C using a theta = 1.047.

Washington Harbor Porpoise Acid Buffer.
PNW cetacean muscle biochemistry
Muscle adaptation to diving

Washington Harbor Porpoise Myoglobin.
PNW cetacean muscle biochemistry
Muscle adaptation to diving

Chemical Lab analysis of bird samples collected at various locations throughout Washington State between 2005 and 2010. Samples were analyzed for POPs at the NWFSC in 2010-2011.
POPs and stable isotopes in bird and forage fish tissues
POPs and stable isotopes in bird and forage fish tissues

Chemical Lab analysis of fish samples collected at various locations throughout Washington state between 2007 and 2009. Samples were analyzed for POPs at the NWFSC in 2010-2011.
POPs and stable isotopes in bird and forage fish tissues
POPs and stable isotopes in bird and forage fish tissues

Stable Isotope Lab analysis of fish samples collected at various locations throughout Washington state between 2007 and 2009. Samples were analyzed at the NWFSC in 2010-2011.
POPs and stable isotopes in bird and forage fish tissues
POPs and stable isotopes in bird and forage fish tissues

PIT tag detections and associated data from several types of detector types (matrix antenna trawl system, fin-antenna barge system, flexible antenna system, and pile dike antenna system) used to estimate migration timing and survival of juvenile salmonids in the Columbia River Estuary. Operated from 3/26/2018 to 6/16/2018
PTAGIS
Regional PIT tag data respository

This table describes data associated with each Pacific hake collected by Department of Fisheries and Oceans, Canada (DFO) and Washington Department of Fish and Wildlife (WDFW).
Pacific Hake
Age, somatic growth, otolith chemistry

Pacific Northwest Salmon Habitat Project Database
Pacific Northwest Salmon Habitat Project Database
Pacific Northwest Salmon Habitat Project Oracle Database

Electroshocking PIT tag data from middle Elwha River.
Physical
All relevant physical data

Following simulated hauling, fish from individual tanks were transferred to 4 inch diameter circular tanks for observation. Mortality was recorded daily for 7 days.
Post-Haul Mortality
Following simulated hauling, fish from individual tanks will be transferred to 4 in diameter circular tanks for observation. Mortality will be recorded daily for 7 days.

Shark tissue stable isotope signatures from Northeast Pacific coastal habitats.
Predator Gut Isotopes
Shark tissue stable isotope signatures from Northeast Pacific coastal habitats.

This layer portrays predicted channel patterns for large rivers (>8m bankfull width) in the Columbia River basin. The channel patterns include confined reaches (floodplain width <4 times bankfull width), and the four common channel patterns described in Beechie et al. (2006), braided, island-braided, meandering, and straight. Predictions are based on a support vector machine model described in Beechie and Imaki (2014).
Predicted channel types
GIS hydrography layer with multiple stream attributes

Spatial data file containing survey points from US General Land Office Surveys (GLO) from the late 1800s and early 1900s. Each point contains information on plant species presence/absence and simplified vegetation classes, as well as elevation (from the National Elevation Dataset), and air temperature and precipitation information (from PRISM climate data).
Predicted riparian vegetation
GIS hydrography layer with riparian attributes

Elwha River Odd Year Pink Salmon Captive Broodstock Production Data for 2012 to 2015.
Production Data
Information on the number of smolts received into the program is maintained and summarized by year. The production of adults transferred to the Elwha Hatchery for restoration activities is also annually summarized.

Information on the number of eyed eggs, juveniles, and adults received into the program is maintained and summarized by year. The production of adults spawned, adults transferred to Idaho for release, green eggs taken, and eyed eggs shipped to Idaho and Oregon facilities for restoration activities is also annually summarized.
Production data
Information on the number of eyed eggs, juveniles, and adults received into the program is maintained and summarized by year. The production of adults spawned, adults transferred to Idaho for release, green eggs taken, and eyed eggs shipped to Idaho and Oregon facilities for restoration activities is also annually summarized.

Proximate composition of macroalgae.
Proximate
proximate composition

solids, protein, lipid, and ash analyses from collected fish processing waste.
Proximate analyses
Proximate analysis and solubility of new materials

Field work coupling measurements of carbon chemistry and distribution of free-living organisms.
Puget Sound ocean acidification model outputs
spreadsheet

Time series of Puget Sound steelhead abundance.
Puget Sound steelhead life cycle model analyses
These data will be outputs from life cycle models developed by the Puget Sound steehead recovery team to evaluate

Quota prices and transactions counts
Quota Prices
Quota prices and transactions counts

Bird Species Codes used at Qwuloolt and adjacent reference sites.
Qwuloolt biota
Species composition of plants, fallout insects, benthic invertebrates, birds, and fishes at Qwuloolt and adjacent reference sites

Bird count data at Qwuloolt and adjacent reference sites.
Qwuloolt biota
Species composition of plants, fallout insects, benthic invertebrates, birds, and fishes at Qwuloolt and adjacent reference sites

Fish counts by site and date in the Snohomish River estuary.
Qwuloolt biota
Species composition of plants, fallout insects, benthic invertebrates, birds, and fishes at Qwuloolt and adjacent reference sites

Data from insect fallout traps and benthic cores in the Snohomish River estuary.
Qwuloolt biota
Species composition of plants, fallout insects, benthic invertebrates, birds, and fishes at Qwuloolt and adjacent reference sites

RTK Survey Data.
Qwuloolt elevation
RTK GPS point locations at project and reference sites.

Data from continuos water sensors in Snohomish River estuary.
Qwuloolt hydrology
Water level, temperature, and salinity at project and reference sites

Details for sensors deployed in the Snohomish River estuary.
Qwuloolt hydrology
Water level, temperature, and salinity at project and reference sites

Details of where sensors are located in the Snohomish River estuary.
Qwuloolt hydrology
Water level, temperature, and salinity at project and reference sites

This table contains information about tagged fish and their release information for sockeye salmon in the Columbia and Snake River basins.
Radio telemetry data
Tagging, Monitoring sites, and detections by year

This table contains information about sockeye salmon radiotelemetry detections in the Columbia and Snake River basins.
Radio telemetry data
Tagging, Monitoring sites, and detections by year

This table contains information about radiotelemetry site installations for tracking radiotagged sockeye salmon in the Columbia and Snake River basins.
Radio telemetry data
Tagging, Monitoring sites, and detections by year

This table contains acoustic detection data for white-spotted ratfish tagged with acoustic transmitters in the Puget Sound.
Ratfish data
Acoustic telemetry data for whitespotted ratfish

This is the cases of the stands and stand conditions used in the simulation, in this case 28 simulations. Format must be consistent with Forest Vegetation Simulator protocol. See https://www.fs.fed.us/fmsc/fvs/software/index.shtml for model manuals.
Reference stand condition
Data of DF forest reference stands

This is the initial stand conditions in this case 7 stand types. Format must be consistent with Forest Vegetation Simulator protocol. See https://www.fs.fed.us/fmsc/fvs/software/index.shtml for model manuals.
Reference stand condition
Data of DF forest reference stands

This is the initial condition of the trees found in the plots and stands. Format must be consistent with Forest Vegetation Simulator protocol. See https://www.fs.fed.us/fmsc/fvs/software/index.shtml for model manuals or https://www.fs.fed.us/fmsc/ftp.
Reference stand condition
Data of DF forest reference stands

This is initial plot data used in the simulation. Format must be consistent with Forest Vegetation Simulator protocol. See https://www.fs.fed.us/fmsc/fvs/software/index.shtml for model manuals.
Reference stand condition
Data of DF forest reference stands

This is the FVS model output. It provides information for each tree in each plot in each stand for each year of the simulation. See FVS user guide at https://www.fs.fed.us/fmsc/fvs/ for model manuals.
Reference stand condition
Data of DF forest reference stands

This file contains the biological data for rockfish in the tagging study.
Rockfish data
Acoustic telemetry data for rockfish in Puget Sound, primarily copper and quillback

This file contains the result of a rockfish tagging/tracking study conducted using VEMCO acoustic tracking equipment. Tagging was done in Summer/Fall 2006. Data are the x-y position of individual fish within the tracking array (XPOS, YPOS) or latitude and longitude of the fish's position at a specific time. The relocations of fixed pingers are included to allow for the removal the effects of tides, which move the receiver buoys. See Tolimieri, N., K. Andrews, G. Williams, S. Katz, and P. S. Levin. 2009. Home range size and patterns of space use by lingcod, copper rockfish and quillback rockfish in relation to diel and tidal cycles. Marine Ecology Progress Series 380:229-243.
Rockfish data
Acoustic telemetry data for rockfish in Puget Sound, primarily copper and quillback

fish sex, parentage, lengths, weights, and comments.
SDMG
Sablefish Dimorphic Muscle Growth

The data contained in the SPS database are primarily summary data, compiled at the population level. The database also includes a limited number of series representing the aggregate returns to groups of populations (e.g., Lower Granite Dam counts) or counts of spawners within a subsection of a population where expansions to the population level were not feasible. The information used to develop the population level estimates comes from a variety of sources, but mostly originates from the monitoring programs conducted by state and tribal fishery agencies. The Technical Recovery Teams and NWFSC staff have processed this information to provide an estimate of spawning abundance at the population level. A variety of different types of information (e.g., redd counts, dam counts, carcass surveys, tag recoveries, scale analysis) forms the basis of the information in the database, and where possible the database provides references to these information sources. It is important to recognize that spawning abundance values and other information in the SPS database are not 'facts' that are known with certainty. Rather, they are estimates based on a variety of sources of information, some known with greater precision or accuracy than others. Ideally, these estimates would be characterized by a known level of statistical uncertainty. However, for the most part such a statistical characterization is either not possible or has not been attempted, and the database reports only the best estimates of the values. In all cases there is some degree of uncertainty surrounding these estimates. The NWFSC intends to work with our state and tribal partners to keep the SPS database as up-to-date as possible, and new annual estimates will be added as they become available. Disclaimer: Due to the wide variety of data sources that go into the SPS database, the NWFSC does not guarantee the accuracy of any of the data in the SPS database. In particular, neither the U.S. Government, nor any agency or employee thereof, makes any warranties, expressed or implied, with respect to the accuracy of the data, including but not limited to the implied warranties or merchantability and fitness for any particular purpose. In no event shall the U.S. Government, nor any agency or employee thereof, be liable for any direct, indirect, or consequential damage flowing from the use of the data in the SPS database.
SPS Abundance
Abundance of ESA-listed salmonids

This table contains results from data collected in 2007-2009 and presented in Holt et al. 2009 and 2011.
SRKW acoustic response
Measurements of vocal behavior, whale behavioral states, background noise measurements, vessel counts and other attributes

This table contains results from data collected in 2007-2009 and presented in Holt et al. 2009 JASA-EL and Holt et al. 2011 JASA.
SRKW acoustic response
Measurements of vocal behavior, whale behavioral states, background noise measurements, vessel counts and other attributes

This table contains results from data collected in 2007-2009 and presented in Holt et al. 2012, Marine Mammal Science.
SRKW acoustic response
Measurements of vocal behavior, whale behavioral states, background noise measurements, vessel counts and other attributes

This table contains results from data collected in 2007-2009 and presented in Holt et al. 2012, Marine Mammal Science; it only includes intervals in which at least on killer whale call occurred.
SRKW acoustic response
Measurements of vocal behavior, whale behavioral states, background noise measurements, vessel counts and other attributes

This table contains results from data collected in 2007 and presented in Holt et al. 2009 JASA-EL.
SRKW acoustic response
Measurements of vocal behavior, whale behavioral states, background noise measurements, vessel counts and other attributes

This data set has been shared via the Dryad Digital Repository (https://datadryad.org). Please use the link under "Web Application" below to access this data.
SRKW summer prey
SRKW prey needs

These data were derived from a feeding study with juvenile sablefish, comparing plant-based feeds (flax, corn) with fish-based feed (reference). Intestinal microbiomes were determined by hybridization of a gastronintesntial DNA microarray.
Sablefish GI microbiome & histology
Raw & refined classification & abundance data from array analysis & histology analysis

Salish Sea genetic inventory
Salish Sea Genetics
Genetic data

Date and time records of acoustically tagged steelhead smolt detections at sites located along their migration path from release in freshwater, through Puget Sound, to the Strait of Juan de Fuca.
Salish Sea Marine Survival (Steelhead)
Steelhead smolt locations

Mid-Klamath River Coho Ponds PIT Tag Data.
Salmonid use of restored habitat in the Klamath River basin
Assessment of the use of restored and unrestored habitat by salmonids in the Klamath River basin

Descriptive table associated with Sevengill Shark Tag Detections data. This table includes the catch information (tag ID, tagging date, tag battery life, size and sex) associated with acoustically tagged sevengill sharks (Notorhynchus cepedianus) in coastal estuaries of Washington State, USA. Associated details can be obtained by referencing: Williams et al. 2012. Scale and pattern of broadnose sevengill shark Notorynchus cepedianus movement in estuarine embayments. Journal of Fish Biology 80:1380-1400.
Sevengill shark data
Acoustic telemetry data for sevengill sharks

Descriptive table associated with Sevengill Shark Tag Detections data. This table includes specific information about acoustic receivers (site name, description, geographic coordinates, and deployment dates) designed to detect movements of acoustically tagged sevengill sharks in coastal estuaries of Washington State, USA. Associated details can be obtained by referencing: Williams et al. 2012. Scale and pattern of broadnose sevengill shark Notorynchus cepedianus movement in estuarine embayments. Journal of Fish Biology 80:1380-1400.
Sevengill shark data
Acoustic telemetry data for sevengill sharks

This table includes the time, date, and detection sites of acoustically tagged sevengill sharks (Notorhynchus cepedianus) in coastal estuaries of Washington State, USA. Also see descriptive tables Sevengill Shark Tag Catch and Sevengill Shark Tag Detect Site for associated data. More details can be obtained by referencing: Williams et al. 2012. Scale and pattern of broadnose sevengill shark Notorynchus cepedianus movement in estuarine embayments. Journal of Fish Biology 80:1380-1400.
Sevengill shark data
Acoustic telemetry data for sevengill sharks

This table contains fish metrics and gonadal gene expression data for juvenile sablefish sampled during the process of sex differentiation.
Sex control experiments
In these experiments sablefish sex ratio data are collected using gonadal histology and a genetic sex marker.

This table contains morphometric and histological data from cultured sablefish sampled for assessment of normal sex differentiation.
Sex control experiments
In these experiments sablefish sex ratio data are collected using gonadal histology and a genetic sex marker.

This table contains analytical results of Sixgill sharks in the Puget Sound.
Sixgill Shark Data
Acoustic telemetry data for sixgill sharks

Contains information about migration of tagged juvenile salmon through the Snake and Columbia River hydropower system, information about growth rate of juvenile offspring and life history information about their parents, Microsatellite genotypes for juveniles used in this study, and Microsatellite genotypes for all adults spawned 2007-2009.
Snake River fall Chinook reproductive success
Snake River fall Chinook reproductive success

Digital elevation model (DEM) derived from Light Detection and Ranging (LiDAR) for the Snohomish River Estuary collected July 20 and 21, 2009.
Snohomish estuary LiDAR and RGB orthophotos
LiDAR and orthophotos from 2009 across whole Snohomish River estuary

The study examines the effect of a point source food supply on the social behavior of sockeye salmon (Oncorhynchus nerka) reared in a conservation hatchery setting. The three treatments consisted of a control in which fish were not fed, an experimental treatment in which fish were fed using point source automated feeders and an experimental treatment in which fish were hand fed. Each replicate consisted of placing three fish in a 3.6 m grey circular tank, allowing them overnight to recover from the effects of handling, and starting at 0900 the next morning photographing them at half hour intervals until 13 photographs were acquired. The photographs were examined for grouping, mean angle between fish and mean distance between fish. General observations made over the course of the study and analysis of the photographic data indicate Snake River sockeye salmon vary their social behavior from solitary to paired to aggregated to schooled and the presence of a point source food supply increases aggression, but does not elicit territorial defense.
Social Behavior
Interfish distance, interfish orientation,

Detail and aggregate catch data given a date at a site and species caught
Southern California Hook and Line Survey
This data set contains information on date; time; vessel; set identification (i.e. unique sampling event number); gear performance; location; depth; soak time; sea surface temperature; water column profile that includes temperature, salinity, dissolved oxygen, turbidity, and chlorophyll; ocean and weather observations; hook disposition; species captured; length and weight information for all specimens captured; and sex, age structure, and genetics data for all rockfish specimens captured.

Operation details down to the hook level
Southern California Hook and Line Survey
This data set contains information on date; time; vessel; set identification (i.e. unique sampling event number); gear performance; location; depth; soak time; sea surface temperature; water column profile that includes temperature, salinity, dissolved oxygen, turbidity, and chlorophyll; ocean and weather observations; hook disposition; species captured; length and weight information for all specimens captured; and sex, age structure, and genetics data for all rockfish specimens captured.

Hook and Line individual details for only individuals that are not excluded
Southern California Hook and Line Survey
This data set contains information on date; time; vessel; set identification (i.e. unique sampling event number); gear performance; location; depth; soak time; sea surface temperature; water column profile that includes temperature, salinity, dissolved oxygen, turbidity, and chlorophyll; ocean and weather observations; hook disposition; species captured; length and weight information for all specimens captured; and sex, age structure, and genetics data for all rockfish specimens captured.

Physical information of male spawners used in the Redfish Lake captive brood stock program.
Spawning data
The fork length to the nearest mm, weight to the nearest gram, fecundity, and green egg weight to the nearest mg of every female spawned is recorded. The fork length to the nearest mm, weight to the nearest gram, milt weight to the nearest 0.01 gram, milt volume, spermatocrit, and milt motility of every male spawned is recorded. The eyed egg weight and % survival to the eyed stage for every batch of fertilized eggs is recorded. A record is maintained describing which male is crossed with which female.

This data tracks female to male artificial propagation and egg survival rates.
Spawning data
The fork length to the nearest mm, weight to the nearest gram, fecundity, and green egg weight to the nearest mg of every female spawned is recorded. The fork length to the nearest mm, weight to the nearest gram, milt weight to the nearest 0.01 gram, milt volume, spermatocrit, and milt motility of every male spawned is recorded. The eyed egg weight and % survival to the eyed stage for every batch of fertilized eggs is recorded. A record is maintained describing which male is crossed with which female.

Bycatch reduction species composition
Species Composition
Species composition (lengths, weights, counts) for regular and bycatch reduction device-impacted trawls.

This table contains analytical results of depth data for spiny dogfish sharks tagged with acoustic transmitters in the Puget Sound.
Spiny dogfish data
Acoustic telemetry data for spiny dogfish sharks

Natural abundance levels of N and C isotopes measured in riparian plants, saltmarsh plants, suspended particulate organic matter, marine alga and Pacific Oysters in the Samish, Dosewallips, and Hamma River estuaries. Objective was to quantify the relative contribution of terrestrial, estuarine and marine C and N supporting commercial oyster populations and how this relationship varied across three river basins.
Stable isotope database
Stable isotopes of Carbon and Nitrogen for Pacific oysters and potential diet sources from marine and freshwater sources in the Samish, Hamma Hamma and Dosewallips growing areas. This dataset also includes water quality parameters from CTD casts at high tide in the oyster beds.

This table contains estimates of juvenile survival from a number of years and for various reaches within the Snake and Columbia rivers, for Chinook salmon and steelhead trout.
Survival estimates
Annual reach survival estimates

The R2 values for different river sections.
Tabular statistical summay of data analysis
Summary of statistical analysis of the Calawah Riverscape data. NOAA was not involved and did not pay for the collection of this data. This data represents the statistical analysis carried out by Martin Liermann as a NOAA employee.

Summary statistics for different models fit to the data.
Tabular statistical summay of data analysis
Summary of statistical analysis of the Calawah Riverscape data. NOAA was not involved and did not pay for the collection of this data. This data represents the statistical analysis carried out by Martin Liermann as a NOAA employee.

Feeding and swimming data of tagged and non-tagged fish.
Tag effect data
Data on effects of acoustic tags on hatchery lingcod feeding and movement

This table contains data on fish collected during PIT tagging operations including tagged and untagged fish. Most of the data are from summer electrofishing surveys the data from fall and spring trapping are included in later years.
Tagging, Mux, smolt, habitat and flow data
PIT tagging and habitat data. Includes fish weight, length, location, and PIT tag number. Habitat data includes wood measurements and stream surveys.

Recorded fish weights, feed consumed, and feed efficiencies.
Taurine Growth Effects
Fish weights and lengths for study

Measured temperature of live hauling of fish.
Temperature
Temperature will be measured using the thermistor sensors in the YSI ProODO or YSI 556 MPS units.

Trough 1, Incubators 1 and 17.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 3, Incubators 1 and 17.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 3, Incubators 16 and 32.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 1, Incubators 16 and 32.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 1, Incubators 1 and 17.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 1, Incubators 16 and 32.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 3, Incubators 1 and 17.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 3, Incubators 16 and 32.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 1, Incubators 1 and 17.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 1, Incubators 16 and 32.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 3, Incubators 1 and 17.
Temperature
Variation of temperature in incubation system following chiller failure

Trough 3, Incubators 16 and 32.
Temperature
Variation of temperature in incubation system following chiller failure

Total ammonia nitrogen measured using an Orion Ammonia electrode, calibrated daily with standard solutions (0.1, 1, 10, and 100 mg/Liter), and results expressed as mg/Liter TAN
Total Ammonia Nitrogen (TAN)
Total ammonia nitrogen will be measured using an Orion Ammonia electrode, calibrated daily with standard solutions (0.1, 1, 10, and 100 mg/Liter), and results expressed as mg/Liter TAN

Count and biomass of catch in Kodiak trawl across Puget Sound in 2011.
Townet database
Filemaker Pro database containing fish data collection

Un-ionized ammonia based on TAN, temperature, salinity, and pH.
Un-ionized Ammonia (UIA)
Un-ionized ammonia will be based on TAN, temperature, salinity, and pH. UIA will be computed from Tables 9 or 10 in http://fisheries.org/hatchery

Measurements of salmonid vertebrae.
Vertebrae classification models
ancient vertebrae measurements

Identifying environmental determinants favorable for the presence and transmission of pathogenic vibrios.
Vibrio ecology
Concentrations of Vibrio parahaemolyticus in oysters, water and sediments. Temperature, salinity, chlorophyll, SPM, DOC and pigment analysis

Results of a survey for the bacterium Vibrio parahaemolyticus in oyster growing areas of Washington State, 2007-2008.
Vibrio ecology in PNW
Time series data on pathogen abundance, temperature, salinity and sampling locations

Genetic and population structure analysis of clinical and environmental Vibrio parahaemolyticus strains
Vibrio population structure
genome sequences

Bycatch reduction video direct count
Video Direct Count Data
Direct species counting and behavioral observations from video data

Data about Sablefish sampled in Washington State between August 2012 and December 2013.
Washington coast sablefish
Size, sex, gonad stage, fecundity

This table contains analytical measurements of various chemical constituents in water.
Water Analyses
Analyses of water samples for water chemistry (e.g., pH) and metals.

This data set has been shared via the Dryad Digital Repository (https://datadryad.org). Please use the link under "Web Application" below to access this data.
Wenatchee Chinook Parentage
Microsatellite data from spring run Wenatchee River Chinook salmon

This data set has been shared via the Dryad Digital Repository (https://datadryad.org). Please use the link under "Web Application" below to access this data.
Wenatchee River steelhead reproductive success
Genotypes and phenotypes of steelhead from the Wenatchee River

Beginning in the spring of 2015 the US West Coast began to experience the most wide-spread toxic Pseudo-nitzschia bloom to date, after approximately eight years without a toxic bloom event. Some species of Pseudo-nitzschia produce the neurotoxin domoic acid, which can have deleterious effects on marine wildlife (e.g. mammals and seabirds) as well as human consumers of food items (e.g. shellfish, crabs, sardines, anchovies) that are contaminated with the toxin. This multi-agency project aims to survey the bloom region, which stretches from southern California into the Gulf of Alaska, on the greatest spatial and temporal extent possible. Goals of the survey are to identify the extent of the bloom, the concentration of domoic acid in the bloom, the Pseudo-nitzschia species responsible for the toxicity, and the relationship of the bloom event to prevailing oceanographic and atmospheric conditions. The survey will allow for the creation of maps showing the spatial extent and concentrations of domoic acid, Pseudo-nitzschia, and oceanographic parameters such as temperature and salinity. The data collected from the survey will inform inferences as to the cause(s) of the toxic event. The effort will employ targeted research cruises, cruises of opportunity, and shore based sampling. Samples will be analyzed for marine toxins, harmful algal species, and other environmental and oceanographic parameters using state-of-the-art methodologies.
West Coast DA Event data
Dataset contains domoic acid measurements, Pseudo-nitzschia species identifications and enumerations, and other physical oceanographic, biological and chemical oceanographic data.

Beginning in the spring of 2015 the US West Coast began to experience the most wide-spread toxic Pseudo-nitzschia bloom to date, after approximately eight years without a toxic bloom event. Some species of Pseudo-nitzschia produce the neurotoxin domoic acid, which can have deleterious effects on marine wildlife (e.g. mammals and seabirds) as well as human consumers of food items (e.g. shellfish, crabs, sardines, anchovies) that are contaminated with the toxin. This multi-agency project aims to survey the bloom region, which stretches from southern California into the Gulf of Alaska, on the greatest spatial and temporal extent possible. Goals of the survey are to identify the extent of the bloom, the concentration of domoic acid in the bloom, the Pseudo-nitzschia species responsible for the toxicity, and the relationship of the bloom event to prevailing oceanographic and atmospheric conditions. The survey will allow for the creation of maps showing the spatial extent and concentrations of domoic acid, Pseudo-nitzschia, and oceanographic parameters such as temperature and salinity. The data collected from the survey will inform inferences as to the cause(s) of the toxic event. The effort will employ targeted research cruises, cruises of opportunity, and shore based sampling. Samples will be analyzed for marine toxins, harmful algal species, and other environmental and oceanographic parameters using state-of-the-art methodologies.
West Coast DA Event data
Dataset contains domoic acid measurements, Pseudo-nitzschia species identifications and enumerations, and other physical oceanographic, biological and chemical oceanographic data.

Catch data from bottom trawl survey
West Coast Groundfish Bottom Trawl Survey Data
This data set contains information on date, time, vessel, trawl identification (i.e. unique number), trawl performance, location, depth, area swept, trawl duration, temperature, species, haul weight, average individual weight, sex, length, length method, fish age and age structure.

Operation details including dates, times, location, depths, tempuratures, etc
West Coast Groundfish Bottom Trawl Survey Data
This data set contains information on date, time, vessel, trawl identification (i.e. unique number), trawl performance, location, depth, area swept, trawl duration, temperature, species, haul weight, average individual weight, sex, length, length method, fish age and age structure.

Individuals caught and measured on the bottom trawl survey
West Coast Groundfish Bottom Trawl Survey Data
This data set contains information on date, time, vessel, trawl identification (i.e. unique number), trawl performance, location, depth, area swept, trawl duration, temperature, species, haul weight, average individual weight, sex, length, length method, fish age and age structure.

This is a selection of functional groups taken from NOAA Technical Memos. A functional group is a set of species who share certain commonalities.
West Coast fish, mammal, and bird species diets
West coast fish, mammal, bird diets. Available online as Dufault et al. 2009 NOAA Tech Memo NWFSC-103, with full xls format appendices. https://www.nwfsc.noaa.gov/publications/scipubs/displayinclude.cfm?incfile=technicalmemorandum2009.inc

Here diet composition is summarized by percent weight. Functional groups are from Brand et al. (2007) and the species that comprise them are listed in Table 1 and Table 2 of the publication. Vertebrate predator diets can vary between the juvenile and adult stages. Similarly, vertebrate prey may be either juveniles or adults. Publication available here: https://www.nwfsc.noaa.gov/assets/25/1040_12212009_134730_DietsCalCurrentTM103WebFinal.pdf.
West Coast fish, mammal, and bird species diets
West coast fish, mammal, bird diets. Available online as Dufault et al. 2009 NOAA Tech Memo NWFSC-103, with full xls format appendices. https://www.nwfsc.noaa.gov/publications/scipubs/displayinclude.cfm?incfile=technicalmemorandum2009.inc

Here, diet composition is summarized by percent weight, for individual species.
West Coast fish, mammal, and bird species diets
West coast fish, mammal, bird diets. Available online as Dufault et al. 2009 NOAA Tech Memo NWFSC-103, with full xls format appendices. https://www.nwfsc.noaa.gov/publications/scipubs/displayinclude.cfm?incfile=technicalmemorandum2009.inc

West Coast fish, mammal, bird life history and abunance parameters.
West Coast fish, mammal, bird life history and abunance parameters
Published as Horne et al. 2010 NOAA NWFSC Tech memo 104, with full Excel data sheets: https://www.nwfsc.noaa.gov/publications/scipubs/displayinclude.cfm?incfile=technicalmemorandum2010.inc

Demographic data from Yakima River Carcass Surveys (2002-2010).
Yakima Spring Chinook carcasses
Comprehensive GIS data of Yakima River Spring Chinook spawners

Annual Yakima River Redd Survey GIS Data 2002 to 2012.
Yakima Spring Chinook redds
Comprehensive GIS data of Yakima River Spring Chinook redds

Zooplantkon Densities in the Bongo Net from Ocean Salmon Surveys.
Zooplankton Data
Oblique Bongo Tows for juvenile salmonid prey field index

Summarized environmental data related to salmon survival.
marine survival ecosystem indicators
Data is a summary of ecosystem indicators of coho salmon marine survival