Western Fisheries Research Center

Publications

Filter Total Items: 2,295
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Year Published: 2020

Shifting food web structure during dam removal—Disturbance and recovery during a major restoration action

We measured food availability and diet composition of juvenile salmonids over multiple years and seasons before and during the world’s largest dam removal on the Elwha River, Washington State. We conducted these measurements over three sediment-impacted sections (the estuary and two sections of the river downstream of each dam) and compared these...

Morley, Sarah A.; Foley, Melissa M; Duda, Jeffrey J.; Beirne, Mathew M; Paradis, Rebecca L; Johnson, Rachelle Carina; McHenry, Michael L.; Elofson, Mel; Sampson, Earnest M; McCoy, Randall E; Stapleton, Justin; Pess, George R.

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Year Published: 2020

Disease in Central Valley salmon: Status and lessons from other systems

Chinook Salmon (Oncorhynchus tshawytscha) are increasingly vulnerable to anthropogenic activities and climate change, especially at their most southern species range in California’s Central Valley. There is considerable interest in understanding stressors that contribute to population decline and in identifying management actions that reduce the...

Lehman, Brendan M; Johnson, Rachel C.; Adkison, Mark; Burgess, Oliver T; Connon, Richard E; Fangue, Nann A.; Foott, Scott J; Hallett, Sascha L; Martínez-López, Beatriz; Miller, Kristina M.; Purcell, Maureen K.; Som, Nicholas A.; Valdes-Donoso, Pablo; Collins, Alison L

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Year Published: 2020

Genomes reveal genetic diversity of Piscine orthoreovirus in farmed and free-ranging salmonids from Canada and USA

Piscine orthoreovirus (PRV-1) is a segmented RNA virus which is commonly found in salmonids in the Atlantic and Pacific Oceans. PRV-1 causes the Heart and Skeletal Muscle Inflammation (HSMI) disease in Atlantic salmon and is associated with several other disease conditions. Previous phylogenetic studies of genome segment 1 (S1) identified four...

Siah, Ahmed; Breyta, B. R.; Warheit, K. I.; Gagne, N; Purcell, Maureen K.; Morrison, Diane B.; Powell, J. F. F.; Johnson, S. C.

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Year Published: 2020

A standard operating procedure for the preparation of purposely killed juvenile salmon used to test survival model assumptions

This document describes a standard operating procedure (SOP) for the preparation of purposely killed juvenile salmon, implanted with telemetry transmitters, to be released into rivers, lakes, or streams to test one of the survival model assumptions. Procedures for releases of purposely killed fish (hereinafter dead fish releases) were developed by...

Tomka, Ryan G.; Liedtke, Theresa L.; Frost, Conrad; Smith, Collin D.
Tomka, R.G., Liedtke, T.L., Frost, C., and Smith, C.D., 2020, A standard operating procedure for the preparation of purposely killed juvenile salmon used to test survival model assumptions: U.S. Geological Survey Open-File Report 2020–1083, 11 p., https://doi.org/10.3133/ofr20201083.

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Year Published: 2020

Genomic architecture and repertoire of the rainbow trout immunoglobulin light chain genes

The genomic loci encoding the four immunoglobulin light chains (IgL1, IgL2, IgL3, and IgL4) in the Swanson trout genome assembly were annotated in order to provide a measurement of the potential IgL repertoire. IgL1 and IgL3 gene segments are co-localized on chromosomes 21, 18, 15, and 7 while IgL2 and IgL4 were found on chromosomes 13 and 17,...

Rego, Katherine; Hansen, John; Bromage, Erin S

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Year Published: 2020

Use of environmental DNA to detect the invasive aquatic plants Myriophyllum spicatum and Egeria densa in lakes

Environmental DNA (eDNA) analysis offers a promising tool for rapid and early detection of aquatic plant invasive species, but currently suffers from substantial unknowns that limit its widespread use in monitoring programs. We conducted the first study to test the factors related to eDNA-based detectability of 2 invasive aquatic plants, ...

Kuehne, Lauren M; Ostberg, Carl; Chase, Dorothy M.; Duda, Jeffrey J.; Olden, Julian D.

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Year Published: 2020

Development of a two-stage life cycle model for Oncorhynchus kisutch (coho salmon) in the upper Cowlitz River Basin, Washington

Recovery of salmon populations in the upper Cowlitz River Basin depends on trap-and-haul efforts owing to impassable dams. Therefore, successful recovery depends on the collection of out-migrating juvenile salmon at Cowlitz Falls Dam (CFD) for transport below downstream dams, as well as the collection of adults for transport upstream from the dams...

Plumb, John M.; Perry, Russell W.
Plumb, J.M., and Perry, R.W., 2020, Development of a two-stage life cycle model for Oncorhynchus kisutch (coho salmon) in the upper Cowlitz River Basin, Washington: U.S. Geological Survey Open-File Report 2020–1068, 25 p., https://doi.org/10.3133/ofr20201068.

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Year Published: 2020

Research, monitoring, and evaluation of emerging issues and measures to recover the Snake River Fall Chinook Salmon ESU: January 2019 - December 2019

The portion of the Snake River fall Chinook salmon Oncorhynchus tshawytscha evolutionary significant unit (ESU) that spawns upstream of Lower Granite Dam transitioned from low to high abundance during 19922019 in association with U.S. Endangered Species Act recovery efforts and other federally mandated actions. This annual report focuses on (1)...

Tiffan, Kenneth; Perry, Russell

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Year Published: 2020

Effects of harmful algal blooms and associated water-quality on endangered Lost River and shortnose suckers

Anthropogenic eutrophication contributes to harmful blooms of cyanobacteria in freshwater ecosystems worldwide. In Upper Klamath Lake, Oregon, massive blooms of Aphanizomenon flos-aquae and smaller blooms of other cyanobacteria are associated with cyanotoxins, hypoxia, high pH, high concentrations of ammonia, and potentially hypercapnia...

Burdick, Summer M.; Hewitt, David A.; Martin, Barbara A.; Schenk, Liam N.; Rounds, Stewart

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Year Published: 2020

Juvenile Lost River and shortnose sucker year-class formation, survival, and growth in Upper Klamath Lake, Oregon, and Clear Lake Reservoir, California—2018 monitoring report

Executive SummaryPopulations of federally endangered Lost River (Deltistes luxatus) and shortnose suckers (Chasmistes brevirostris) in Upper Klamath Lake, Oregon, and Clear Lake Reservoir (hereinafter Clear Lake), California, are experiencing long-term decreases in abundance. Upper Klamath Lake populations are decreasing not only because of adult...

Bart, Ryan J.; Burdick, Summer M.; Hoy, Marshal S.; Ostberg, Carl O.
Bart, R.J., Burdick, S.M., Hoy, M.S., and Ostberg, C.O., 2020, Juvenile Lost River and shortnose sucker year-class formation, survival, and growth in Upper Klamath Lake, Oregon, and Clear Lake Reservoir, California—2018 monitoring report: U.S. Geological Survey Open-File Report 2020–1064, 33 p., https://doi.org/10.3133/ofr20201064.

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Year Published: 2020

Fish and habitat assessment in Rock Creek, Klickitat County, southeastern Washington, 2018

Executive SummaryNative steelhead (anadromous form of rainbow trout [Oncorhynchus mykiss]) and bridgelip sucker (Catostomus columbianus) were historically used by the Kah-miltpah (Rock Creek) Band for sustenance, trade, and traditional practices in Rock Creek, a tributary to the Columbia River in southeastern Washington State. Rock Creek flows...

Hardiman, Jill M.
Hardiman, J.M., 2020, Fish and habitat assessment in Rock Creek, Klickitat County, southeastern Washington, 2018: U.S. Geological Survey Open-File Report 2020–1051, 44 p., including appendixes, https://doi.org/10.3133/ofr20201051.

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Year Published: 2020

Development of a quantitative PCR assay for detecting Egeria densa in environmental DNA samples

Brazilian elodea (Egeria densa) is an invasive freshwater plant that demonstrates widespread ecological impacts in freshwater ecosystems and causes substantial economic damage. Here, we developed an environmental DNA assay for detection of E. densa to provide resource managers with a tool for early detection, identification, and...

Chase, Dorothy M.; Kuehne, Lauren M; Olden, Julian D.; Ostberg, Carl