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algal blooms
16
Apr

A resurgence of dinoflagellates, which can cause harmful algal blooms, may be in the cards for some bays along the U.S. West Coast.

A resurgence of dinoflagellates, which can cause harmful algal blooms, may be in the cards for some bays along the U.S. West Coast. Scientists at UC Santa Cruz have been monitoring phytoplankton weekly at the town’s Municipal Wharf since 2002. In 2018, Alexis Fischer, then a postdoctoral fellow at UC Santa Cruz, augmented these observations with an Imaging FlowCytobot (IFCB) that photographed wharf phytoplankton hourly. She also developed a machine learning classification algorithm to automate identification of the organisms. In...
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13
Feb

A marriage of robotics and artificial intelligence promises to automate the detection of harmful algal blooms, which can trigger shellfish harvesting bans and fill wildlife rescue centers with sickened animals.

The Imaging FlowCytobot (IFCB) takes water samples around the clock and photographs phytoplankton cells floating within. “It’s got a huge amount of potential for figuring out what plankton is in the water column and monitoring for HABs,” says Alexis Fischer, a postdoctoral fellow at the University of California, Santa Cruz with Raphael Kudela. Fischer and colleagues are building a phytoplankton image classifier already capable of identifying more than 90 percent of cells photographed by IFCB at the Santa Cruz Wharf. The...
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31
Aug

In the absence of a government program to contend with harmful algae blooms (HABs) in the Delta, a loose coalition of academics and environmental and community groups has been studying their spread and potential health impacts both from ground level and from the air.

San Francisco Baykeeper has been sending up drones to monitor eight sites between Discovery Bay and downtown Stockton, as well as photo-documenting the spread and intensity of HABs from airplanes flown by Lighthawk Conservation Flying. At the same time, volunteers with Restore the Delta have been conducting water quality testing for HABs and the toxins they produce. “The airplane and drones together allow us to get a really broad geographic understanding of where these neon green HABs are occurring, says...
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13
Nov

Recent discoveries are promising new weapons against red tides, the massive blooms of microscopic marine algae that are notorious for playing havoc with marine ecosystems.

The culprit behind poisoned seabirds, closed crab fisheries, stranded sea lions, and shellfish poisoning in humans are often diatoms producing the neurotoxin domoic acid. Now, scientists have identified the genes and biochemical processes responsible in diatoms of the genus Pseudo-nitzschia. The finding, published in the journal Science, opens the door to rapid genetic monitoring of algal blooms as a means to spot nascent harmful blooms and track their spread. “By identifying the genes that encode domoic acid production, we are...
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05
Oct

Toxic Summer for Sea Lions

The Marine Mammal Center in Sausalito is wrapping up a busy summer. A potent neurotoxin called domoic acid, propagated by toxic algal blooms, poses a threat to California sea lions. Originally called “Amnesiac shellfish poisoning,” domoic acid targets the hippocampus and can have devastating effects on sea lions.
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21
Sep

Nutrient Nuances Modeled

San Francisco Bay is becoming less opaque as the sediments power-washed into the Estuary by miners so long ago gradually disperse. This lets sunlight penetrate deeper into the water, creating more favorable conditions for the kind of problematic algal blooms that can shut down crab fisheries and keep people and their pooches out of the water. Scientists have collaborated on some new computer models, however, that may help them predict where and when nutrients, like nitrogen and phosphate from discharges...
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03
Mar

Bay Primed for Pea Soup?

Nutrients could be the next big problem for San Francisco Bay — or make that in the Bay, because they’re already here at levels high enough to have caused trouble elsewhere. But despite its excess nitrogen and phosphorus, the Bay has been free of harmful algal blooms and oxygen-depleted dead zones for decades. Indeed, we’ve been so sure of this immunity to nutrients that most wastewater treatment plants don’t even have to remove them before discharging into the Bay. Recent...
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12
Oct

Rocky Road to a Fresh Enough Delta

Nothing reveals just how much the upper Estuary’s seesaw of tides and freshwater flows is micro-managed than prolonged drought, and the resulting fiddling with barriers, gates, and water quality standards to prevent the ocean tides and salinity from intruding too far upstream. Come summer, managers begin to talk fearfully of “losing control of the Delta” and the dreaded outcome: salt water too near the export pumps that supply tap water for millions of Californians. The ominous language is also reflected...
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12
Oct

Science in Short: The Hullabaloo About HABS

Dead fish belly up in Lake Merritt and San Francisco Bay this past August sent scientists like Keith Bouma-Gregson scrambling to pinpoint the cause. A harmful bloom of marine algae had taken up residence in the Bay, and while many of the fish died from the resulting lack of oxygen in the water, toxins produced by the algae could have played some role, says Bouma-Gregson, a biologist with the US Geological Survey and regional expert on HABs. The Delta is no stranger to HABs,...
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13
Jun

Bagman for Bay Mussels

Martin Trinh practically bounces along the dock at the Coyote Point Yacht Club on a breezy, sunny spring morning. He’s carrying a case full of instruments and scopes out an open slip at the end of the pier. Soon he’s lowering a probe into the water, alongside kelp clinging to the underside of the dock. Another trip back to his Prius, still sporting South Carolina license plates, and he’s got a white plastic dish pan and a scrub brush. He...
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15
Feb

Better Living Through Fish – Editor’s Desk

I come from a long line of fisherfolk. My grandparents had a tiny cabin on a Quebec lake. We visited some summers. My grandfather let me drive the big white speedboat at a snail’s pace while he smoked cigars and trolled for trout off the stern. Once, when I caught one bigger than his catch-of-the-day, he “accidentally” knocked it back into the lake with the net. On the dock, we’d sunbathe while he cast lines overhead with a precision worthy...
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25
Oct

Tracking Natural Nitrogen Removal

Nitrogen inputs to the San Francisco Bay are among the highest of estuaries worldwide, yet so far have not caused harmful impacts like extreme algal blooms, oxygen depletion, and fish kills. But resistance to this nutrient may not last. Ever since the Gold Rush, excess sediment from pulverized rock has been pouring into the Bay, clouding the water and keeping algae in check by blocking sunlight. Recently, however, that protective sediment has diminished in parts of the Bay, contributing to...
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25
Oct

Estuary Summit Pivots from Science to People

“Make the unseen more visible in your work,” urged Amanda Bohl, opening speaker for the largely cameras-off audience of 600 virtually assembled for the 2021 State of the San Francisco Estuary Summit this October. The Delta Stewardship Council staffer’s remarks at the 15th biennial conference, usually a two-day, science-and -policy-heavy networking event but this year an eight-hour Zoom summit, referred to how many things we all work on or people we work with everyday remain invisible. Some of these often...
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23
Mar

Delta Study Predicts Stronger Floods and Less Water Supply

Though most don’t realize it, practically all Californians are linked to the Bay-Delta region via its triple function as a source of drinking water for some 27 million Californians, a critical water provider for the Golden State’s hefty agricultural industry, and a rich and unique ecosystem. But for those who live in the legal Delta zone – some 630,000 people – the braided weave of the Sacramento and San Joaquin Rivers and their maze of associated wetlands and levees provides...
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22
Sep

The Delta’s Blooming Problem

Bright-green blotches of algae have been popping up all over the Delta since early summer, from Discovery Bay to the Stockton waterfront, befouling the air and poisoning the water with toxins that can sicken or even kill humans and animals. Veteran Delta watchers believe that this year’s harmful algal blooms may be the worst ever, and worry that some features of Governor Gavin Newsom’s recently released Water Resilience Portfolio for California will aggravate the problem. “We don’t have enough data...
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22
Sep

Makeover for Delta Weed Patch & Salt Trap?

What began as a project to convert a submerged Delta island into habitat for endangered native fish has morphed into a multi-benefit package with additional payoffs for water quality and recreation. The collaborative design process for the Franks Tract Futures project brought initially skeptical local stakeholders on board and is being hailed as a model for future initiatives. Yet major uncertainties remain as interested parties explore the challenges of implementing a complex redesign of a big chunk of the Delta....
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21
Sep

Estuary News
September 2020

September 21, 2020
This issue of ESTUARY News has a fishy focus, summarizing 12 years of research on the fish-friendly Yolo Bypass, and profiling one man who has spent a lifetime helping fish around dams. Reporters take you out on the Delta to survey fish with cameras not nets, and into the offshore ocean to troll for salmon from a kayak. This issue also covers the latest research on COVID in wastewater, emerging contaminants in stormwater, harmful algal blooms in the Delta, a...
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16
Aug

California Sun Podcast Interview with ESTUARY’s Editor Dives into All Things Bay & Delta on the Front Burner Today

This August the California Sun’s Jeff Schechtman interviewed ESTUARY magazine’s editor in chief Ariel Rubissow Okamoto, also a long-time Bay Area science writer, about her personal opinions on the resiliency of the largest estuary on the West Coast, the challenges facing the Sacramento–San Joaquin Delta, and the potential impacts of climate change and sea level rise on the San Francisco Bay.  Listen to the 20-minute podcast here. Mentions: Nutrients, Toxics, Giant Marsh, Adaptation Atlas, Resilience, Sea Level Rise impacts, BCDC...
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13
Dec

Reflowing the Sierra to the Sea

A fall flight over the Mexican coast where the Colorado River meets the Sea of Cortez offered me a gut-punching, eye-screwing, visual on the results of impaired flow. The semantics of ‘unimpaired’ and ‘impaired’ flow have laced the language of California water management debates since some engineer invented these politically ‘neutral’ terms long ago. The terms refer to our alteration of freshwater flows from snowmelt and runoff by dams and diversions. But whatever the labels, or whichever estuary you’re referring...
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02
May

Though a tiny and low-lying treatment plant on the San Leandro shore is facing increasing regulation of nutrients and rising sea levels, it’s got a path to adaptation thanks to the region’s taxpayers.

This April, the San Francisco Bay Restoration Authority awarded the first round of Measure AA grants, including $539,000 for San Leandro’s water pollution control plant. The plant, which is surrounded by blue- and white-collar communities, recently completed upgrades that allow the repurposing of a retired treatment pond. The money will pay for plans, designs, and permit applications necessary to convert the pond to a wastewater treatment marsh and buffer zone between the plant and the advancing Bay—a critical improvement, since...
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The San Francisco Bay-Delta is named in the federal Clean Water Act as one of 28 “estuaries of national significance." For over 20 years, the San Francisco Estuary Partnership has worked together with local communities and federal and state agencies to improve the health of California’s most urbanized estuary.

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