Programs Overview        Education       Aquatic Resource Initiatives

WLI conducts scientific research for the community and resource managers to enable them to make informed decisions in the Whitefish Lake Watershed and beyond.


The Science Advisory Committee (SAC) provides scientific and technical guidance to WLI, focusing on WLI's efforts to conduct research that results in useful data for the community and resource management decision makers in the Whitefish Lake Watershed and beyond. See who is on the Science Advisory Committee.


Read about the history, the present day and the future of Whitefish Lake.

Also check out the signs posted at City beach which we developed in partnership with the City of Whitefish, Whitefish County Water District, and Montana Fish, Wildlife & Parks.

WLI developed data collection parameters, obtained data collection equipment, and increased the level of scientific research on Whitefish Lake, its tributaries and local area steams. Because most pollutants and water chemistry changes are invisible to the naked eye, one cannot evaluate water quality solely by visual inspection. Similarly, because water chemistries and conditions change seasonally and annually, one cannot understand overall lake dynamics by monitoring it for a year or two. It requires that specific measurements be evaluated in respect to one another over time to gain a holistic understanding of the resource.

WLI has typically been collecting baseline data at two permanent sites on Whitefish Lake and on its tributaries since 2007. Data collection typically starts in April and runs through November. Data is collected on all of the lake's tributaries; Hellroaring Creek, Lazy Creek, Smith Creek, Swift Creek, Beaver Creek and Viking Creek, as well as local streams Cow Creek, Haskill Creek, Walker Creek, and the Whitefish River. WLI also conducts annual sampling of Whitefish Lake and Beaver Lake for Aquatic Invasive Species (AIS) such as Eurasian watermilfoil, and zebra and quagga mussels. See AIS page for more information.

WLI and partner data are available in the Whitefish Water Resources Report: A Status of the Whitefish Lake Watershed and Surrounding Area.

WLI installed and maintains a Weather Station near Lazy Bay and partners with the University of Montana's Montana Climate Office on the Mesonet Meterological and Soild moisture information network.


Biological Communities Research
As described in WLI’s Whitefish Water Resources Report: A Status of the Whitefish Lake Watershed and Surrounding Area, Whitefish Lake is oligo-mesotrophic, meaning its water quality can easily be influenced toward decline.  Of the many factors that influence water quality, the trophic structure of the lake has received little attention. WLI has begun conducting research on the biological communities of the lake in an effort to better understand that trophic structure.

In 2013, WLI conducted a 395 point macrophyte and substrate survey along the Whitefish Lake shoreline The survey consisted of determining the composition and relative abundance of plant species at each location, along with characterizing the lake substrate to determine areas suitable for plant colonization. No exotic invasive species were found. Six additional lakes were chosen for macrophyte surveys and early AIS detection in 2014. Lakes were chosen based on proximity to Whitefish Lake and include: Blanchard, Dollar, Lost Coon, Murray, Skyles and Spencer. Lakes were sampled within the first eight days of September. The survey consisted of determining the composition and relative abundance of plant species at each lake along with characterizing the lake substrate to determine areas suitable for plant colonization. Additional surveys have been conducted by WLI for early detection monitoring of Eurasian watermilfoil (EWM) at many locations including Beaver Bay, Lazy Bay, State Park, the outfall of Viking Creek and City Beach. No EWM was discovered during the surveys, however, additional surveying will continue based on suitable areas for colonization, recreational pressure, and proximity to Beaver Lake which does have EWM. Results of these studies can be found in the Whitefish Water Resources Report: A Status of the Whitefish Lake Watershed and Surrounding Area.

Aquatic Macroinvertebrates were sampled by WLI and analyzed by Rithron Associates in 2015 to determine community assemblages and their relative pollutant tolerance. WLI sampled Whitefish Lake as well as its tributaries including the East Fork of Swift Creek, West Fork of Swift Creek, Swift Creek Mainstem, Lazy Creek, Hellroaring Creek, Beaver Creek, Viking Creek, Upper Whitefish River, Cow Creek, Haskill Creek, and Walker Creek. Macroinvertebrates such as insects, worms, mussels, and snails, tend to be sensitive—in varying degrees— to pollutants. When found in large numbers, macroinvertebrates that require high dissolved oxygen levels tend to indicate good water quality. Because many macroinvertebrate community assemblages change with declining water quality, they are good indicators of negatively impacted water quality. Existing populations can also elucidate specific aquatic ecosystem changes such as increases in sediment and thermal pollution. Sampling and identifying macroinvertebrate life allows researchers to set a baseline of water quality from which to measure any changes. Thanks to funding from the Cadeau Foundation, WLI now has a professionally conducted baseline macroinvertebrate study that helps describe the health of Whitefish Lake tributaries, Whitefish Lake, and Whitefish Lake Watershed streams. This information will also be used to compare future research results, allowing WLI to report changes from outside influences such as development, pollutants, and climate. Results from this baseline survey can be found in the Whitefish Water Resources Report: A Status of the Whitefish Lake Watershed and Surrounding Area.

Mysis Shrimp
Mysis shrimp (Mysis diluviana) are a nonnative species introduced to Whitefish Lake in 1968, and a species of concern regarding the trophic status of the lake. Mysis have had significant adverse impacts on the Flathead Lake ecosystem, so it is important that we assess their population densities and distribution locally. This Mysis study will be compared to prior studies in the 1980s to provide a necessary update regarding the trophic status and dynamics of Whitefish Lake. Results will inform management activities on the relationship to fish populations and nutrient cycling to understand food web dynamics for recreational angling, and for the overall economic benefit of the lake to the community. Mysis shrimp have been described as the most deterministic event in the legacy of Flathead Lake and the Flathead Basin. Mysis introductions were expected to provide a food source for benthic-feeding fishes such as lake trout, and for pelagic planktivores such as kokanee salmon. However it was later discovered that the expected increased forage for kokanee salmon from the Mysis shrimp transplant was based on erroneous interpretations of the results of introductions elsewhere.


The Whitefish Community Foundation funded a 2016 Mysis shrimp study which took place in early September during the low light phase of the lunar cycle. Sampling occurred after midnight when Mysis shrimp have migrated from the lake bottom vertically to the near surface. Additional information about Mysis shrimp can be found in the Whitefish Water Resources Report: A Status of the Whitefish Lake Watershed and Surrounding Area.

A comparative mysis shrimp study funded by the Whitefish Community Foundation will be conducted in the summer of 2019.

Periphyton is a complex mix of algae, cyanobacteria, microbes, and detritus that is attached to submerged surfaces in aquatic ecosystems. Like macroinvertebrates, periphyton is an important water quality indicator because it is sensitive to and responds quickly to change, and is fairly easy to sample. Periphyton has long been used as a water quality indicator in lotic systems (streams and rivers), but no metrics have yet been developed for determining periphyton tolerance in lentic systems (freshwater lakes). This study will not only provide a needed benchmark for the Whitefish Lake Watershed, but will also have a multiplier effect, furthering science through the development of periphyton analysis for other lakes in the northwest Montana region. Understanding periphyton will further WLI’s knowledge of and ability to manage the waterbodies of the Whitefish Lake Watershed and provide aquatic resource managers with a new management tool. Thanks to funding provided by the Cadeau Foundation, WLI has baseline periphytom information for a better description of the health of Whitefish Lake.

Rangewide Bull Trout eDNA Study
WLI participated in the Rangewide Bull Trout eDNA Study in the Whitefish Lake Watershed. Environmental DNA (eDNA) refers to fragments of genetic material from plants or animals that naturally occur in the environment. In the case of fish, DNA is contained in cells that are continually shed into the water, thus becoming “eDNA.” Each species DNA is unique and can be detected in very small quantities. Scientists can now quickly confirm if a certain species is present in a stream by filtering the water and using laboratory analysis to look for its unique DNA.

Though once abundant, Montana’s native bull trout have declined in many locations and are at risk from a changing climate, non-native species competition, and habitat degradation. The Rangewide Bull Trout eDNA Study is determining the distribution of bull trout throughout the Pacific Northwest. Thanks to this funding, WLI is one of many organizations contributing to this effort.

eDNA sampling is a relatively new, exciting tool with high cost-effectiveness in determining population structure and answering other questions. WLI has utilized eDNA technology since 2013 as it relates to determining presence/absence of aquatic invasive species, now an increased threat in the Watershed. This technology is constantly being refined to facilitate sound management of our aquatic resources.

The Northwest Montana Lakes Volunteer Monitoring Network (NWMTLVMN) is a citizen science program that grew out of two monitoring programs previously underway at the Flathead Basin Commission (FBC) and the Whitefish Lake Institute (WLI). The Flathead Basin Commission, in cooperation with the University of Montana Flathead Lake Biological Station, coordinated the Volunteer Lakes Monitoring Program (VLMP) from 1992-2010. The VLMP trained, equipped and supported local volunteers who collected data and reported on over three dozen lakes in the Flathead Basin.

The Environmental Protection Agency (EPA) and FBC programs were the baseline models for the Whitefish to Eureka Volunteer Lake Monitoring Program (VLMP) which was initiated in 2007 by the WLI in partnership with Montana Fish, Wildlife & Parks (MFWP). The Program was established to provide local residents an opportunity to collect baseline data that to help determine the trophic status of lakes and implement early Aquatic Invasive Species (AIS) detection and prevention in Northwest Montana. In 2010, the Whitefish to Eureka VLMP combined with the FBC VLMP to form the NWMTLVMN. The NWMTLVMN currently has more than fifty volunteers that monitor a total of fifty locations on forty-one lakes in Flathead, Lake, Lincoln and Missoula counties. The lakes in the Program represent diversity in public use, accessibility and morphology.

Through this program, WLI trains "citizen scientists" to monitor 41 lakes in Flathead, Lincoln, Lake, and Missoula Counties by collecting basic limnological measurements such as water chemistries, hydrolab profiles, and plankton tows that will establish lake trend data over time, and to monitor for the presence of AIS. Many of these lakes previously had no scientific data. The partnership enables WLI to extend its monitoring reach through volunteer efforts, while involving community members in understanding and protecting their natural resources. The NWMTLVMN website www.nwmtlvmn.org allows volunteers to access information, report their data, and stay abreast of AIS issues. Volunteers contribute nearly 1000 hours to NWMTLVMN annually.

Link to report

Review NWMTLVMN Volunteer Award

For more photos on Aquatic Invasive Species, go to the
Northwest Montana Lakes Volunteer Monitoring Network