Tuesday, March 22, 2011

Primordial Soup’s Missing Ingredient May Be Sulfur


(I had two stories up on Wired.com yesterday, here is the second one for you!) 

A fresh look at forgotten vials from Stanley Miller’s primordial-soup-in-a-bottle experiments implies that volcanoes seeping hydrogen sulfide helped form some of life’s earliest ingredients.

Sulfur’s presence makes it possible to synthesize a greater variety of amino acids — the molecules that link to form protein chains — and gives nascent life a larger palette of chemicals from which to select.

“When you are analyzing old samples, you always hope in the back of your mind that you are going to find something really cool,” says primary author Eric Parker, a graduate student now at Georgia Tech.
“It was a pleasant surprise to see such a large array of different amino acids and amines.”

In Miller’s classic experiments, dating from the early 1950s, electricity — standing in for lightning — zaps a few basic chemicals, water, methane, hydrogen and ammonia, to simulate the atmospheric conditions on Earth before life began. Miller became famous for showing that simple chemicals could be combined with relative ease to form some of the building blocks of life.

This 1958 experiment, originally unpublished and revisited March 21 in the Proceedings of the National Academy of Sciences, marked Miller’s first inclusion of hydrogen sulfide, the chemical that makes rotten eggs smell and a prime component of volcanic gas emissions, in the primordial mix.

Using modern chemical analysis techniques, Parker’s team found 23 amino acids, seven other compounds and four amines, a breakdown product of amino acids. This was far more than typical analysis of past samples, which yielded five to 10 amino acids. Several of the amino acids were synthesized for the first time, including methionine, a required building block for many proteins in animals, plants and fungi.

The newly identified collection of amino acids is also similar to those found in meteorites, meaning sulfur may have help assemble life’s ingredients off this planet, as well as on.

Sandra Pizzarello, an Arizona State University chemist who was not involved with the study, agreed with Parker’s chemical detective work. She noted, however, that all experiments seeking to synthesize prebiotic chemicals are limited.

Earth’s early atmospheric conditions aren’t known, and the reactions in this experiment could only have happened near a source of sulfur. On a primordial Earth, that would have meant volcanoes. Whereas Miller originally focused on chemical reactions in the atmosphere, the primordial soup may have gathered in a volcanic bowl.

Volcanic origins were suggested by a 2008 reanalysis of another forgotten Miller experiment conducted by Jim Cleaves, a geochemist at the Carnegie Institution of Washington, and Scripps Institute of Oceanography biochemist Jeffrey Bada. Both are former students of Miller, and plan to revisit more of his old experiments.

“Miller was a real packrat. He didn’t throw anything out,” said Cleaves, Miller’s final lab student and inheritor of the lab. “Sitting on the shelf was this box, I thought, ‘I don’t know what these are, but I can’t bear to throw them out!’”

Images: 1) Stanley Miller in his UC San Diego lab in 1970/UCSD Archives.

See Also:
Citation: “Primordial Synthesis of Amines and Amino Acids in a 1958 Miller H2S-rich Spark Discharge Experiment.” By Eric T. Parker, H. James Cleaves, Jason P. Dworkin, Daniel P. Glavin, Michael P. Callahan, Andrew D. Aubrey, Antonio Lazcano, and Jeffrey L. Bada. Proceedings of the National Academy of Sciences U.S.A., Mar. 21, 2011.

Monday, March 21, 2011

Robot Swarms Could Help Search for Life in Martian Caves

Robot Swarms Could Help Search for Life in Martian Caves


(Latest story from Wired Science.) 

Autonomous swarming robots, programmed to search like honeybees, could be the best strategy to explore caves on Mars that may harbor life.

Methane traces in the Martian atmosphere point to undiscovered activity – whether geological or biological – lurking beneath the surface. “Something interesting is going on down there,” said Áron Kisdi, an engineer at the University of Southampton, UK. “We just need to find it.”

In a paper Mar. 3 in Acta Astronautica Kisdi presents a strategy that he believes offers the best way for robots to search large expanses of Mars for new caves, maximizing search area and minimizing search time.

In 2007 NASA’s Mars Odyssey spacecraft found seven large holes in the surface – too large and deep to be explored with rovers. Odyssey’s resolution isn’t fine enough, however, to reveal smaller caves.  And these, if found, could be more accessible to rovers, with shallow entrances and narrower shafts.

“We have sent robots to mars a few times now,” Kisdi said. “But we’ve only seen a small fraction of
 the planet.”

For his swarm search strategy, Kisdi envisions using a rolling, jumping robot, Jollbot. A Mars lander would release 40 to 60 swarmbots to autonomously and randomly scout for caves, in the same way bees hunt for nesting sites.

When a robot finds a cave – sensed by a difference in temperature – it returns by the shortest route, the bee line, back to the lander. It wirelessly uploads the cave’s coordinates and temperature readings to the lander. Then it checks the information uploaded into the lander by the rest of the hive and decides to either start a new search or visit a cave discovered by another robot. If it also approves of a spot, it informs the lander and the process begins again.

Within a few iterations, the group comes to a consensus: either enough bots deem it a good site to point out to mission control, or interest peters out.

The simplicity of this strategy, Kisdi said, allows for the swarming robots to use the bulk of their power on locomotion, rather than programming, and to be cheaper to build. It also ensures that a larger, more sophisticated rover sent in after the bots won’t waste its time on uninteresting places.

“And if you lose a robot,” he said, “the search isn’t over.”

In a report released Mar. 7, a panel convened by the National Research Council asked NASA to give the Mars Astrobiology Explorer-Cacher the highest priority of its large missions. This project, the first of three, would collect samples from the Martian surface for analysis. But the report stresses the mission should only proceed if costs can be cut to $2.5 billion – $1 billion less than current independent estimates. This could give Kisdi’s search algorithm a better chance of, one day, seeing the methane of Mars.

“The hard thing about exploring Mars is providing power to robots on the surface,” said David Beaty, Mars Program Science Manager at NASA’s Jet Propulsion Laboratory. “The surface area of Mars is equal to the surface area of Earth’s continents. Traveling between one cave and another might be a distance of hundreds of miles.”

Beaty isn’t aware of any swarming robot search models under current development at NASA. But, he says, if the robots in Kisdi’s search model were long-lasting and mobile enough, the idea has potential. In Kisdi’s current simulation 50 swarm robots cover an area of 300 square meters in about five days. The area can be expanded by adding more robots with a longer search distance.

“I’d like to start developing the hardware next,” Kisdi said. “I plan to keep working on the idea until the next call for proposals on Mars missions.”

Image: A candidate landing site for Mars Science Laboratory, Curiosity, captured by the HiRISE telescope. Credit: NASA/JPL/University of Arizona.

See Also:
Citation: “Future robotic exploration using honeybee search strategy: Example search for caves on Mars.” By Áron Kisdi and Adrian R.L. Tatnall. Acta Astronautica, Mar. 3, 2011.

Thursday, March 3, 2011

4 New Species of Zombifying Fungus Found

(Because I take my charge to bring you the latest in funky insect news very seriously, my newest piece from Wired.com.) 

Four new species of brain-manipulating fungi that turn ants into "zombies" have been discovered in the Brazilian rain forest.
These fungi control ant behavior with mind-altering chemicals, then kill them. They're part of a large family of fungi that create chemicals that mess with animal nervous systems.

Usually scientists study these fungi as specimens preserved in a lab, said entomologist David Hughes of Pennsylvania State University, co-author of a study March 3 PLoS ONE. "By going into the forest to watch them, we found new micro-structures and behaviors."

Once infected by spores, the worker ants, normally dedicated to serving the colony, leave the nest, find a small shrub and start climbing. The fungi directs all ants to the same kind of leaf: about 25 centimeters above the ground and at a precise angle to the sun (though the favored angle varies between fungi). How the fungi do this is a mystery.

"It's related to the fungus that LSD comes from," Hughes said. "Obviously they are producing lots of interesting chemicals."

Before dying, ants anchor themselves to the leaf, clamping their jaws on the edge or a vein on the underside. The fungi then takes over, turning the ant's body into a spore-producing factory. It lives off the ant carcass, using it as a platform to launch spores, for up to a year.

"This is completely different from what we see in temperate zones where, if an insect dies from a fungal infection, the game's over in a few days," Hughes said.

"The fungi rots the body of the insect and releases massive amounts of spores over two or three days. But in the tropics, where humidity and temperature are more stable, the fungi has this strategy for long-term release."

Of the four new species, two grow long, arrow-like spores which eject like missiles from the fungus, seeking to land on a passing ant. The other fungi propel shorter spores, which change shape in mid-air to become like boomerangs and land nearby. If these fail to land on an ant, the spores sprout stalks that can snag ants walking over them. Upon infecting the new ant, the cycle starts again.

Chemicals from this global group of fungi, known as Cordyceps, have been a part of traditional medicine for thousands years, and part of Western medicine for the last 50.

Organ transplant patients, for example, receive ciclosporin — a drug that suppresses the immune system, reducing the chance the body will reject the new tissue. Chemicals from this same fungal group are also used for antibiotic, antimalarial and anticancer drugs.

The fungi help the forest by keeping ant populations in check. "All of the problems with global ant infestations, for example the Argentine fire ant," Hughes said, "is because the ants have escaped their natural enemies. Then they become a pest."

These fungi need a precise level of humidity to survive. As global temperature changes, the forests where they live are drying. Hughes and his colleagues are now studying the decline these fungi.

"We're worried we'll see the extinction of a species we've only just managed to describe."

On the following pages are more photographs of zombifying fungi in action.
 
<< Previous | Next >>

All images: David Hughes, Pennsylvania State University

See Also:

Citation: “Hidden diversity behind the Zombie-Ant fungus Ophiocordyceps unilateralis: Four new species described from Carpenter ants in Minas Gerais, Brazil.” By Harry C. Evans, Simon L. Elliot, David P. Hughes. PloS One, Vol. 6 No. 3, March 2011.

Sunday, February 27, 2011

The blossoms and the bees


Bee video
Originally uploaded by danielle512
California's almond groves turn white for a few weeks in early spring as the trees go into a blooming bonanza.

To ensure a nut harvest, California farmers hire up to half the nation's honeybees during this brief flowery flash. This afternoon I visited an orchard, near Merced, that hopes to reduce its dependence on hired honeybees. They recently planted a bee garden to attract and feed native bees throughout the year, see photos below.

Wednesday, February 23, 2011

Gorgeous Jeweled Beetle Reveals Its Tricks

Aside from dolphins and aliens, my favorite things to write about are bugs. Wired Science gave me another opportunity to this week:

Gorgeous Jeweled Beetle Reveals Its Tricks

Japanese jewel beetle
Image: Takehiko Sato.
The Japanese jewel beetle has been a prized ornament since ancient times, and now researchers have revealed the secret to its scintillating good looks.

Brilliant metallic purples and greens run the length of each beetle's body. Each color band corresponds to varying numbers of stacked chitin layers in its wing covers. These nano-scale layers scramble light and reflect an iridescent sheen, reported a team from the Netherlands and Japan in the Mar. 12 issue of The Philosophical Transactions of the Royal Society B.

 “This surprises me. I’ve always assumed they had the same number of layers throughout the body,” said Dave Kavanaugh, curator of the insect collection at the California Academy of Sciences, who was not involved with the study. “It makes the color change much less accidental.”

For many iridescent insects, color seems incidental, a quirk of the cuticle surface. In the insects Kavanaugh studies, surface ridges cause visible iridescence, but their primary job is to deflect water or mud. Many are active at night, when their colors can’t be seen. But the Japanese jewel beetle's surface is smooth, and the study's authors suspect that iridescence helps these insects recognize each other and find mates.

If you find yourself in Japan, on a summer walk through the woods, you might find one yourself. If you can’t make it to Japan, enjoy these photographs.


See the full gallery on Wired Science

Tuesday, February 15, 2011

To Talk With Aliens, Learn to Speak With Dolphins


(My story on today's Wired Science.)

The Kepler Space Telescope announced a new bonanza of distant planets this month, reconfirming that solar systems, some possibly hosting life, are common in the universe.

So if humanity someday arrives at an extraterrestrial cocktail party, will we be ready to mingle? At the Wild Dolphin Project in Jupiter, Florida, researchers train for contact by trying to talk with dolphins.
Behavioral biologist Denise Herzing started studying free-ranging spotted dolphins in the Bahamas more than two decades ago. Over the years, she noticed some dolphins seeking human company, seemingly out of curiosity.

“We thought, ‘This is fascinating, let’s see if we can take it further,’” Herzing said. “Many studies communicate with dolphins, especially in captivity, using fish as a reward. But it’s rare to ask dolphins to communicate with us.”

Dolphins have large, sophisticated brains, elaborately developed in the areas linked to higher-order thinking. They have a complex social structure, form alliances, share duties and display personalities. Put a mirror in their tank and they can recognize themselves, indicating a sense of self.

When trained, they have a remarkable capacity to pick up language. At the Dolphin Institute in Hawaii, Louis Herman and his team taught dolphins hundreds of words using gestures and symbols. Dolphins, they found, could understand the difference between statements and questions, concepts like “none” or “absent,” and that changing word order changes the meaning of a sentence. Essentially, they get syntax.

Some tantalizing studies even suggest dolphins share their own language (see sidebar, “Easier Language Through Math”). All are qualities we’d hope to see in an alien, and no daydream of contact is complete without some attempt at communication. Yet with dolphins, our attempts have involved teaching them to speak our language, rather than meeting in the middle.

Herzing created an open-ended framework for communication, using sounds, symbols and props to interact with the dolphins. The goal was to create a shared, primitive language that would allow dolphins and humans to ask for props, such as balls or scarves.

Divers demonstrated the system by pressing keys on a large submerged keyboard. Other humans would throw them the corresponding prop. In addition to being labeled with a symbol, each key was paired with a whistle that dolphins could mimic. A dolphin could ask for a toy either by pushing the key with her nose, or whistling.

Herzing’s study is the first of its kind. No one has tried to establish two-way communication in the wild.

“This is an authentic way to approach this, she’s not imposing herself on them,” said Lori Marino, the Emory University biologist who, with Hunter College psychologist Diana Reiss, pioneered dolphin self-recognition studies. “She’s cultivated a relationship with these dolphins over a very long time and it’s entirely on their terms. I think this is the future of working with dolphins.”

For each session, the researchers played with the dolphins for about half-an-hour, for a total of roughly 40 hours over the course of three years. They reported their findings of this pilot study in the December issue of Acta Astronautica.

Herzing’s team found that six dolphins, all young females, were interested in the game, and would come to play when the game was on. Young males were typically less social and less interested in humans. “This is when the females have a lot of play time,” Herzing said, “before they are busy being mothers.”

To Herzing’s surprise, some of her spotted dolphins recruited bottlenose dolphins, another species, to the game. This shows their natural curiosity, Herzing said. In the wild, dolphins communicate across cetacean species lines, coordinating hunting with other dolphins and even sharing babysitting duties.

Herzing found the study sessions were most successful when, before playing, the humans and dolphins swam together slowly and in synchrony, mimicked each other and made eye contact. These are signs of good etiquette among dolphins. Humans also signal their interest in someone with eye contact and similar body language. Perhaps these are universal — and extraterrestrial — signs of good manners.

Before we hope to understand extraterrestrials, then, perhaps we should practice with smart animals right here on Earth. Astronomer Laurance Doyle of the SETI Institute was struck by this thought at a recent conference.

“From the way the presenter was speaking, I thought he was going to announce that he had found a signal of extraterrestrial intelligence,” Doyle said. “We’ve been waiting for this for years, but I thought, ‘We’re not ready!’  We can’t even speak to the intelligent animals on Earth.”

Image: Two Atlantic spotted dolphins in the wild. (Ricardo Liberato)

See Also:

Citations: “SETI meets a social intelligence: Dolphins as a model for real-time interaction and communication with a sentient species.” By Denise L. Herzing. Acta Astronautica, Vol. 67 December 2010.

“Information theory, animal communication, and the search for extraterrestrial intelligence.” By Laurance R. Doyle, Brenda McCowan, Simon Johnston and Sean F. Hanser. Acta Astronautica, Vol. 68, February-March 2011.
 

Sunday, February 6, 2011

A little lemon love


A couple of good lemon recipes
One of my favorite cakes to make, containing a few of my favorite things: zucchini, olive oil and lemons.
Zucchini Cake with Crunchy Lemon Glaze

With eggs, almonds, cream and lemons, this frittata-cum-tart is a knee-weakening swirl of flavors.
Cake, Tart, Frittata: Call It the New Baking 

I haven’t tried to make preserved lemons yet, but I’m dying to. This recipe is part of my plans for spring break.
Capturing Morocco in Its Sunny Pickle

And, remember, we must not live on sweet things alone.
Lemon Risotto from Epicurious.com

(Note: A reposting from our class blog A Tale of Ten Slugs.)