Delta in distress

The Sacramento San Joaquin River Delta (Delta) is dying. It has really been dying since 1849, when that historically highly invasive and destructive race of homo sapiens - the white man - discovered gold and started invading the state in large numbers. To be fair, white women started arriving, too.

This particular delta is a fairly rare example of an inverted river delta. Map from the 1995 Sacramento-San Joaquin Delta Atlas. Click to enlarge

An inverted delta comes to a point where the river leaves a wide, flat area rather than where it enters. In fact, if you look up inverted river delta on the internet, the Sacramento-San Joaquin Delta very often used as an illustration. Historically, the Sacramento and the San Joaquin rivers dropped much of their sediment loads in the valley before converging and flowing out to the Pacific Ocean through a gap in the Coast Range, forming a huge inland tidal marsh. If you look at a relief map of California, you'll see a large valley down the middle. This is the Sacramento-San Joaquin Valley, otherwise known as the Central Valley.
This entire area used to drain through the Delta, the Carquinez Straights, and out to the Pacific through San Pablo and San Francisco bays.

The Delta is important for many species, including: anadromous species (e.g. sturgeon, lamprey, salmon), the endemic Delta smelt, and the non-endemic humans. The anadromous species migrate out through the Delta as juveniles, and then back in again as adults. Half the waterfowl migrating along the Pacific Flyway use it as a stop over.

Gold Rush
One of the first major negative impacts to the Delta was the California Gold Rush.

Forty-niners
The gold rush brought hundreds of thousands of people into California very suddenly. This many people meant that within a short time, most of the easily accessible gold had been collected, and the miners resorted to more destructive means of collection. Hydraulic mining - using high pressure jets to wash all alluvial sediment, often entire hillsides, down where the miners could then extract the gold - was the most destructive. Photo of hydraulic placer mining at the Malakoff Diggings, circa 1860.

This created millions of tons of sediment that washed down into the Central Valley, aggrading the stream and rivers beds, burying farmland, and causing widespread flooding. Farmers sued, and the practice was largely stopped in 1884, but much of the environmental damage is still being felt today.

Thousands of pounds of liquid mercury were used in the placer mining process. The very dense mercury amalgamates with gold, making it heavier and easier to separate from sand and gravel. The U.S. Geological Survey indicates that potentially over 10,000,000 lbs. of mercury were lost to the environment in California due to placer mining. This mercury is very slowly making it's way down the river systems and out to the Pacific - via the Delta. In addition, other watersheds that drain into the Sacramento River have naturally high concentrations of cinnabar (mercury ore).

Farming
Over about the last 7000 to 10,000 years (since the last ice age), peat had built up in the Delta, and formed very low islands surrounded by meandering waterways. This peat is extremely fertile. Farmers arrived along with the Forty-niners, and started building levees around the edges of the islands to barricade their houses and crops against the natural yearly flooding - and then unnatural flooding due to mining.

Once peat is dried out and disturbed, it starts to oxidize and subside. This, wind, and compaction have caused some of these islands to subside by more than 20 feet in the last 150 years. Rather than many small islands with gently sloping banks covered with emergent vegetation, the Delta is now enormous leveed "bowls" surrounded by dredged and riprapped channels.From a 2000 USGS pamphlet about Delta subsidence.

Although most of these levees have been raised, strengthened, and riprapped over the years, many are original and getting very old. Built on soft peat soils, and made mostly of peat and dredge material, they are highly susceptible to erosion and external pressure during flood events, and rodent burrowing. Note the water surface elevation compared to the island interior. The more the interior of the islands subside, the higher the pressure from the water.

There are also numerous faults in the area, and a moderate earthquake could cause several levees to break at once. When a levee breaks, it can "suck" salt water from San Francisco Bay into the Delta. Breaches in the levees of several islands at once could disrupt the water supply of millions of Californians (see below).

A levee around the Jones Tract island broke on a clear morning in June of 2004 when water levels were normal for that time of year.Photo from the California Department of Water Resources website.

The California Department of Water Resources spent months and millions of dollars fixing the break and then pumping out all the water.

The Delta farmers pump water from the channels. This map from the California Delta Atlas shows thousands of pumps - many of which are unscreened. Map from the 1995 Sacramento-San Joaquin Delta Atlas. Click to enlarge

Fish are sucked in and pumped out onto fields ending up as very expensive fertilizer (or cheap, depending on how you look at it).

The conversion of seasonally inundated wetlands and floodplains due to urbanization and agricultural land conversion also results in a reduction in overall primary productivity.

Waterworks
Historically, salinities in the Delta fluctuated greatly. Salt water would ebb and flow with the tide, and how far upstream it "intruded" depended on the Sacramento and San Joaquin river outflows.

As the area became more populated, a constant source of fresh water became much more important. The California legislature authorized the Central Valley Project (CVP) in 1933, and the project was reauthorized by the federal Rivers and Harbors Act of 1937. Construction began on Shasta Dam on the Sacramento River in 1938. Shasta Dam alone dramatically reduced the Delta salinity fluctuations, but numerous large dams have been built on most of the major and many minor rivers in the system. The State Water Project (SWP) was authorized in 1960, and the tallest dam in the United States, Oroville Dam, was finished in 1968.Photo of Oroville Dam from the California Department of Water Resources website.

The dams affect the system in several ways:
1. They block the upstream migration of anadromous fish.
2. They act as sediment traps, leaving the rivers below with "hungry" water, which tends to erode steep, incised banks. Some were built as sediment traps due to the huge volumes of sediment still moving down from the hydraulic mining.
3. They are operated to keep the summer river flows artificially high and constant for irrigation and Delta water export purposes.

Another component of the CVP and SWP are the delta pumps. Each project has huge pumps at the south end of the Delta which pump millions of gallons down through the Central Valley in enormous aqueducts; irrigating California agriculture, supplying drinking water, and helping keep California between the 7th and 10th largest economy in the world. Much of the water coming out of taps in Los Angeles comes from the Delta, 444 miles away.

When the Delta pumps are operating, they are pumping enough water to reverse the flow in many delta channels. This confuses fish who are trying to swim downstream and end up swimming back up into the Delta. The pumps have enormous screens to filter out (most of the) fish and divert them into tanks rather than into the canals. The fish are then pumped into trucks and taken to be released back into the Delta. Not surprisingly, many fish do not survive this process. Predatory fish also learn where the release points are, and hang out in the area waiting for confused and stunned prey to be dropped in front of their noses. The federally threatened Delta smelt (Hypomesus transpacificus) are particularly delicate, and rarely survive the ordeal.

Invasive Species
The Delta is rife with introduced species which directly compete with or eat native species. Additionally, some have the ability to change the environment. When the tiny estuarine Asian or overbite clam (Corbula amurensis) was introduced in the 1980's, probably via bilgewater from one of the many ships docking in the San Francisco Bay Area, it rapidly spread up through the estuarine system, and now coats the bottom in many places. There are enough of them to filter out huge amounts of phytoplankton - the basis of the food web. The future freshwater parts of the Delta will likely include quagga and zebra mussels, as I pointed out in a previous post. These have a history of, among other things, filtering out phytoplankton and reducing primary productivity.

Another species which has changed the Delta environment is Brazilian elodea (Egeria densa). This was probably introduced via people dumping fishtank water, as it is a common aquarium plant, and it forms dense mats in many of the shallower freshwater areas, crowding out many of the native aquatic plants. It also slows water flow, allowing fine sediments to drop out, and increasing clarity in a naturally turbid environment. The pelagic and nearly translucent Delta smelt evolved in this environment and relies on turbidity to hide from predators.Photo from the California Department of Fish and Game Bay-Delta Region website.

Introduced plankton are changing the base of the Delta food web. The cyclopoid copepod Limnoithona tetraspina has made up a large part of the copepod biomass for about the last 15 years, but it apparently is not a good food source for native species.

Purposefully introduced species include: Striped bass, large mouth and small mouth bass, bullhead and channel catfish, American shad, threadfin shad, wagasaki...the list goes on.

Toxins
Toxins that occur in the Delta are many and various. Almost the entire Central Valley drains through the Delta, and any pesticides, municipal, industrial, or agricultural effluent, mercury and arsenic from mining, and other toxins that get into the water supply, eventually make it through there. In addition, since it was first detected in 1999, there have been more frequent, and more widespread blooms of the toxic cyanobacteria, Microcystis aeruginosa.

Threatened and Endangered Species
Here is a short list of native species in trouble in the Delta:

Delta Smelt
Central Valley Spring-run Chinook salmon (Oncorhynchus tschawytscha)
Sacramento River Winter-run Chinook salmon,
Apparently Fall-run Chinook are also having trouble, now
California Central Valley steelhead (Oncorhynchus mykiss)
longfin smelt (Spirinchus thaleichthys)
green sturgeon (Acipenser medirostris)
river lamprey (Lampetra ayresii)

Hopefully we can avoid what happened to the thicktail chub - once one of the most common fish in the Delta, which was extinct by about 1953.

I am an aquatic ecologist, so I tend to be biased toward the aquatic species, but Tule Elk, once the predominant deer in California, - thousands of which lived in the Delta - were nearly extinct by the 1860s. There are now 22 small herds left, scattered throughout California. The California state animal, the California Grizzly, was hunted to extinction by 1922. There are numerous threatened and endangered amphibians, reptiles, birds, and plants in California. The historic range of many of these includes or once included the Delta.

Threats to the Delta are multiple and synergistic. One of my former university professors, Peter B. Moyle, calls this "the heavy hand of humans."

The Ad-dressing of Platypuses

With all the fundamentalist morons claiming that a platypus is some sort of chimera, I feel as though I have to defend the integrity of my blog title. So with apologies to both T. S. Eliot and The Digital Cuttlefish:

The Ad-dressing of Platypuses

You’ve heard of the platypus from Australia
That is a member of the Class Mammalia
It split off from our family tree
Before we evolved viviparity
When first discovered it caused a ruckus
But was very soon named Ornithorhynchus

But how do you ad-dress a platypus?

It has a bill superficially like a duck
That it uses to dig around in the muck
This “beak” is electro-sensory and more
To locate prey for this carnivore
It does lay eggs, like few mammals other
But young platypus do drink milk from their mother

And contrary to what you may have heard
A PLATYPUS is NOT part BIRD

The venomous ankle spurs the males portray
May help keep other males at bay
And this is hypothesized to be the reason
They are only venomous during breeding season

But do not make the silly MISTAKE
To think the Platypus is part SNAKE

A chimera is a mythical creature
With breathing fire as a prominent feature
Part lion, part serpent, part goat but all Greek
Bellerophon and Pegasus killed this freak

Although the beast was born of Echidna
A platypus is real and is NOT a CHIMERA

A chimaera is a fish of the deep and dark
With a rat-tail and claspers, it’s related to the shark
It also is any organism with genetically different tissues
A chimera can cause the CSI some real issues
Although this might confuse a true believer
The platypus is obviously neither

A chimera is also a wild dream or illusion
This is MUCH more like the creationist’s delusion

The genetics are causing evolutionists no fuss
And this is how you AD-DRESS a PLATYPUS

Blog name change

In case you didn't notice, I changed the name of the blog. I like the name Chimaera (or chimera) because it refers to Greek mythology, genetics, or a fish. For you non-fishy people, Chimaeras are a very interesting (to me, anyway) Chondrichthyan fish - the same class as sharks, rays, and skates. Their common names are ratfish, rabbitfish, and ghost sharks. They have cartilaginous skeletons, lack scales and have internal fertilization, and I've always been partial to rats and mythical beasts, so I took an immediate liking to them in my first ichthyology class in college.

The fish, of course, was named after the Greek monster. The Chimaera was a fearsome fire-breathing creature with the front part of a lion, the middle part goat and the hind part serpent, sometimes depicted with the heads of all three. It was terrorizing the Lycian countryside, and was killed by Bellerophon with the help of Pegasus. Alternately, it can mean any similarly grotesque monster having disparate parts, or a horrible or unreal creature of the imagination.

A genetic chimera is an organism, organ, or part consisting of two or more genetically distinct tissues. This can occur naturally, or as the result of organ transplant, grafting, or genetic engineering. Human chimeras were first discovered when it was found that some people had more than one blood type. Most of them were "blood chimeras" -- non-identical twins who shared a blood supply in the uterus. Another example of a chimera is something I have on the windowsill at work. A variegated plant.

Synonyms for chimera include: dream, fantasy, and delusion. It can also mean a fanciful mental illusion or fabrication or a fabulous and fantastic - but completely mixed-up - idea. Like homeopathy, ghosts, astrology, acupuncture, bigfoot, alien visitations (other than the resident and illegal kind), feng shui, or the idea that the universe was created and is being run by some supernatural all-knowing being.

Zebra vs. Quagga elucidation

Well, the highly invasive zebra mussels have finally made it to California. It was only a matter of time as Quagga mussels were found here back in February. The economic impacts of this will far outweigh the dreaded Mediterranean fruit fly (Ceratitis capitata). For one thing, Medflys only attack fruit crops. Zebra and quagga mussels attack water and eco-systems. Medflys are eradicable. Zebra and quagga mussels aren't.

California is a state whose economy is highly dependent on the extensive water system. Snowmelt is captured in giant reservoirs and distributed via rivers and giant aqueducts throughout the state. These mussels will clog the distribution plants and pumps and cause millions of dollars in damages, as they already have done in the Great Lakes and Mississippi River drainage. Here is a photo of a boat prop taken by David Britton of the U.S. Fish and Wildlife Service.
And a Budweiser can.

I don't even want to think about what they will do to the ecosystem. Zebra mussels are notorious for filtering out all the plankton (food for other species), as well as attaching to and potentially suffocating any aquatic creature with a hard surface. They have caused severe declines in native Unionid mussel populations, many of which are already on the brink. This is why: (UPDATE--No, this is NOT a shoe, as someone who shall remain nameless, but happens to be married to me thought. It is a larger native Unionid mussel covered in zebra mussels. Can you tell what species, Kia?)I found this photo on the U.S. Army Corps of Engineers website regarding the zebra mussel caused devastation to the native Unionid mussel species in Lake St. Claire.

The giant reservoirs have already caused declines in most of the anadromous fish species, and many are threatened with extinction, including Chinook salmon (Oncorhynchus tschawytscha), steelhead (O. mykiss), green sturgeon (Aciperser medirostris), and very likely river lamprey (Lampetra ayresii) by among other things blocking them from their historic breeding grounds. The Sacramento-San Joaquin River Delta ecology is collapsing due to intensive modification over the last 150 years, other invasive species including two other bivalve species (Corbula amurensis and Corbicula fluminea), pollution, and heavy water diversion. All the Delta pelagic fish species have recently suffered a precipitous step-decline - introduced species as well as native. Zebra mussels have the potential to finish off species like the Delta smelt (Hypomesus transpacificus) that are just barely holding on as it is.

When the quagga mussels were first discovered, I happened to be the only Environmental Scientist working with a group of engineers. I put together an e-mail for them, because I feel that enginerds need this occasionally (I know Kia has already seen it):

Your Biology lesson for the day

Zebra:






Equus sp.

Zebra mussel:







Dreissena polymorpha

Quagga:

Equus burchelli quagga - a sub-species of Burchell’s Zebra hunted to extinction in the late 1800’s. The last Quagga died in the Amsterdam Zoo in 1883.

Quagga mussel:








Dreissena bugensis - a NON-extinct close relative of the zebra mussel