Since the 2000s, subsistence fishing communities throughout the Yukon River Basin have felt the effects of ongoing Chinook salmon declines and, more recently, severe declines in chum salmon runs - two species that remain critical to the economy, culture, education, and health of each community. Meanwhile, fisheries managers are finding it increasingly difficult to count salmon each summer without interruption when high water events can render their salmon counting equipment unusable until water subsides. As climate change persists, high water events are predicted to become more frequent, prompting the development of this project: testing a complementary approach to traditional salmon counting methods that is robust to high streamflow events. By filtering water samples from five Yukon River tributaries throughout Alaska, we will assess whether environmental DNA (eDNA) analyses can be used to adequately estimate the number of salmon moving through a river system.
to fill data gaps of currently-monitored tributaries caused by intermittent funding, logistical challenges, and high streamflow events
to assess relative run timing and abundance of salmon across a wider range of spawning tributaries
as a lower-cost, less-intensive approach to salmon monitoring that produces relative index of abundance similar to that of an aerial survey but more resilient to weather disruptions and high turbidity
support community-based salmon monitoring efforts
develop and fine-tune river-specific trainings and sampling protocols that state, federal, and tribal entities can sustainably employ as part of their long-term salmon monitoring projects
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Credit: USFWS
At each site, fisheries technicians use video weirs or sonar paired with enumeration towers to count the number of salmon that pass by each day.
Salmon are identified by species and, in some cases, sex.
Credit: UAF, Erik Schoen
Using a small vacuum-like device, researchers suck water up with a tube and through a filter that collects DNA, sediment, and organic matter found in the water
Self-preserving filters are used so researchers don't have to handle filters in the field, which reduces risk of contamination at salmon escapement assessment locations
Temperature and streamflow data are also collected
Credit: UAF, Margaret Harings
Researchers isolate DNA from each filtered sample by removing unwanted sediment and organic matter collected during field filtering
The amount of Chinook and chum DNA found in each sample is determined through a process called quantitative polymerase chain reaction (qPCR)
Salmon DNA concentrations are used to predict daily salmon counts for each of the five sampling sites
Researchers compare predictions to the known salmon counts from each salmon escapement assessment site to determine how well eDNA can be used to count Chinook and chum passing by each day!