The Didymo


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“It’s because of that [mandate] — to provide opportunity and improve opportunity for angling — that we’re concerned about didymo,” Dunnigan said. “Because we think it’s having an impact on the trout.”

Dunnigan says that the low phosphorus levels below the dam are only part of the reason didymo blooms are happening. Nitrogen levels are also unnaturally high due to Canadian mining activity upstream, which creates a nutrient imbalance.

“Because Libby Dam is trapping the phosphorus, and the nitrogen is artificially high, we are way out of whack,” Dunnigan said. Phosphorus attaches to sediment particles and settles out in the slow flow behind the dam, while nitrogen is more soluble and can pass through more easily.

This low-phosphorus, high-nitrogen environment, coupled with the low, stable flows created by the dam, seems to fuel didymo mat production — especially during the winter months when phosphorus, Dunnigan suspects, is particularly low due to lack of runoff.

“Because Libby Dam is trapping the phosphorus, and the nitrogen is artificially high, we are way out of whack.” Jim Dunnigan, Libby Dam Mitigation Coordinator for Montana FWP

Prior studies on the Kootenai River and on South Dakota’s Rapid Creek have shown that adding small amounts of phosphorus can significantly reduce didymo mats. Dunnigan’s hypothesis is that by adding phosphorus in the form of fertilizer, FWP can achieve the dual goal of eliminating didymo blooms and increasing the algae that support caddisflies, stoneflies and mayflies.

“[Didymo] shifts it more toward midges and black flies, very small critters that are not really all that desirable in terms of trout food,” Dunnigan said. “So that’s really the mechanism that we hope to move.”

If Dunnigan’s proposal is approved as presented, FWP would add a continuous stream of liquid ammonium polyphosphate fertilizer into the Kootenai River from January to September, beginning as early as Jan. 1, 2024. Dunnigan’s proposal estimates that the average annual fertilizer cost would be a little over $60,000.

The fertilizer would be added via a pipe attached to the middle of the David Thompson Bridge, just downstream of Libby Dam. The pipe would connect to a pumphouse on the riverbank.

As a pilot study, the project would offer a chance to see if Dunnigan’s theory is right.

“That’s the fun part,” Dunnigan said. “We developed a hypothesis [of] how the system is working, and now we designed an experiment to go out and test it.”

If the project is implemented, fisheries staff will monitor water quality and any changes in algal growth or invertebrate populations. Dunnigan and his team will electrofish every September below the dam — weighing, measuring, and adding a serial number, or “pit tag,” to each fish they capture — to see if individual fish are getting bigger. Dunnigan says rainbow trout growth will be the best metric to quantify whether the effort is working.

“We are informed, we care, and we’re trying to make things better — not just for the resource, but for the people that use it and enjoy it,” Dunnigan said.

IMPACT ON ANGLERS: Four miles downriver from the proposed project site is Dave Blackburn’s Kootenai Angler, one of the longest-running fly-fishing outfitters on the Montana stretch of the river.

Blackburn, who opened the business in 1985, still remembers how big the trout were when he first arrived from Wyoming in 1981.

“The Kootenai was like, holy mackerel — nobody’s fishing it. This was like a virgin river with big fish,” Blackburn said. “And so I figured it would be a good place to do what I wanted to do. It was a very healthy system.”

“The Kootenai was like, holy mackerel — nobody’s fishing it. This was like a virgin river with big fish. And so I figured it would be a good place to do what I wanted to do. It was a very healthy system.” Kootenai Angler Owner, Dave Blackburn.

Blackburn says he first noticed didymo mats in the river around 2000, and he estimates that the fishery below Libby Dam is far less healthy than it was before didymo appeared. In addition to seeing fewer fish in the upper river, he said, dealing with the mats has been a nuisance.

“You could nymph the river before the didymo became a problem and never have to clean your hook. But now, if you hit bottom, you have to check your flies,” Blackburn said. He’s also had to field questions from clients who mistake dried chunks of didymo for toilet paper.

As a guide, Blackburn has had to come to terms with the new landscape.

“Didymo is just something we learned to live with,” Blackburn said. “As long as we have a low-nutrient, low-water, high-sunlight thing, I think it’s always going to be around.”

Asked about Dunnigan’s plan to add nutrients below the dam, Blackburn said he wishes it had started five to 10 years ago. If the project is approved, he said, he’s not concerned about negative impacts.

“The didymo is doing way more damage,” he said. “It’s pretty much limited us in how many trips we [can] do in the upper river.”

CHANGING DYNAMICS: While much about didymo remains a mystery, new research links didymo blooms to warming temperatures and suggests that rock snot isn’t going away on its own.

A study published in 2020 points to receding glaciers as a possible explanation for the appearance of didymo blooms in mountain rivers and streams.

“The story of why didymo is blooming was sort of this evolving character,” said Dr. Janice Brahney, associate professor of watershed sciences at Utah State University and lead author of the study. “But there wasn’t a mechanism that linked the observations to the process. What we were able to show is that it’s a change in the timing.”

In a warming climate, Brahney explained, snow is melting earlier in the year and glaciers are receding, which changes river dynamics. Normally, snowmelt keeps water temperatures cool, brings in nutrients like phosphorus, and adds turbidity that shades the river bottom. Once spring snowmelt subsides, glacial runoff provides a buffer that helps maintain those conditions through the summer months.

But as glaciers disappear, so does the buffer, leading to a warmer, low-nutrient river exposed to more light, which favors didymo blooms.

Didymo, like all algae, generates energy through photosynthesis. When didymo has access to more nutrients, it can use that energy to divide itself and create new cells, says Lindsay Capito, Brahney’s former student and a co-author of the study. But without enough nutrients, didymo can’t divide. Instead, when exposed to high light, didymo generates excess photosynthetic energy that it must put somewhere, leading to the growth of longer and longer mucusy stalks. That process, called photosynthetic overflow, is what scientists think creates didymo’s thick, streambed-covering mats.

By holding back nutrients and sediment, dams create an effect similar to disappearing glaciers, Capito says, which is why didymo blooms are often found in the tailwaters below dams.

As temperatures rise, snow melts earlier, and glacial melt dries up, Brahney’s study suggests that didymo blooms could become even more widespread in mountain ecosystems.

At the same time, Brahney and others say that more research is needed to fully understand how didymo functions and what its ecological impacts are.

“I think we’re missing something still about what drives this organism,” said Sarah Spaulding, research associate at the Institute of Arctic and Alpine Research at the University of Colorado Boulder. An expert in diatoms, Spaulding has been chasing didymo for over 20 years and is still trying to understand its peculiar behavior.

Dunnigan says his study below Libby Dam is the first to show a strong connection between didymo blooms and limits on trout growth. Yet another study found that fish in high mountain streams are not affected by the presence of didymo blooms. With so much still unknown, every experiment promises new information about didymo’s impact and how best to manage it.

Results from the two nutrient addition programs already operating in the Kootenai basin similarly provide insight into how Dunnigan’s management strategy could play out.

Adding fertilizer near the Idaho-Montana border is increasing production on multiple levels of the food web. The project, co-managed by the Kootenai Tribe of Idaho and Idaho Fish and Game since 2005, is seeing higher densities of edible green algae, aquatic macroinvertebrates and growth of largescale suckers. While the project doesn’t have data for rainbow trout, Dunnigan thinks there is little chance his proposed nutrient addition below the dam will do ecological damage to the fishery.

“I think we’re missing something still about what drives this organism” Sarah Spaulding, Research Associate at the Instutue of Artic and Alpine Research at the University of Colorado Boulder.

“A similar project has been occurring for 16 years, 50 miles downstream on the Kootenai, and they have not seen any deleterious effects. So it would be difficult to imagine a different response 50 miles upstream,” Dunnigan said.

In Canada’s Kootenay Lake, nutrient addition is boosting algae and zooplankton that support native kokanee stocks. According to a 2018 info sheet, nutrients were decreased in the late 1990s to test whether the lake could support the food web on its own, but both plankton and kokanee populations rapidly declined. As a result, there are “currently no plans to cease the program.”

In each case, adding small amounts of fertilizer does not appear to harm the river’s ecosystem. And if approved, Dunnigan’s proposed project would add to scientists’ understanding of how nutrient addition impacts didymo blooms and the broader food web below Libby Dam.

“It’s an experiment that [FWP] is going to do,” said Bob Hall, professor of stream ecology at the Flathead Lake Biological Station. “And we can use information from this experiment to guide our management of other places.”

REGULATORY UNCERTAINTY: In January, Dunnigan submitted a draft implementation plan for his nutrient-addition experiment to the Montana Department of Environmental Quality, the state agency responsible for granting discharge permits under the federal Clean Water Act.

In April 2021, the Montana Legislature approved Senate Bill 358, which replaced Montana’s previous numeric standards for regulating nutrients in rivers. Critics regard the alternative narrative standards as less protective of water quality, and environmental nonprofit Upper Missouri Waterkeeper recently filed a lawsuit against the U.S. Environmental Protection Agency for failing to respond to the new law. DEQ says it expects to issue a final proposal for replacement nutrient standards by October 2022.

Prior to SB 358, Dunnigan says, the Kootenai River was never assigned a numeric standard because nutrient levels are so low to begin with. Now he’s unsure how the changed and disputed law might affect his proposal’s odds of approval. He’s awaiting a formal answer from DEQ.

“We are working with Fish, Wildlife and Parks on possible approaches to conducting the proposed study,” said DEQ spokesperson Moira Davin. No timeline for a decision has been set.

As with any experiment, Dunnigan says, the outcome is uncertain, but based on the data at his disposal, he feels confident that the ecosystem will benefit.

“I truly believe there’s a really good chance it could help the river and the productivity, just like the intent is,” he said.

By Bowman Leigh,

Montana Free Press