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Showing posts with label Microorganism. Show all posts
Showing posts with label Microorganism. Show all posts

Monday, December 19, 2011

Close Family Ties Keep Cheaters in Check: Why Almost All Multicellular Organisms Begin Life as a Single Cell



Any multicellular animal, from a blue whale to a human being, poses a special difficulty for the theory of evolution. Most of the cells in its body will die without reproducing, and only a privileged few will pass their genes to the next generation.
An amoeba that must succeed at both single-celled and
multicellular living to pass on its genes, Dicty allows
scientists to ask questions about cooperation and cheating
in multicellular organisms. (Credit: Scott Solomon)

How could the extreme degree of cooperation multicellular existence requires ever evolve? Why aren't all creatures unicellular individualists determined to pass on their own genes?

Joan Strassmann, PhD, and David Queller, PhD, a husband and wife team of evolutionary biologists at Washington University in St. Louis, provide an answer in the Dec. 16 issue of the journal Science. Experiments with amoebae that usually live as individuals but must also join with others to form multicellular bodies to complete their life cycles showed that cooperation depends on kinship.

If amoebae occur in well-mixed cosmopolitan groups, then cheaters will always be able to thrive by freeloading on their cooperative neighbors. But if groups derive from a single cell, cheaters will usually occur in all-cheater groups and will have no cooperators to exploit.

The only exceptions are brand new cheater mutants in all-cooperator groups, and these could pose a problem if the mutation rate is high enough and there are many cells in the group to mutate. In fact, the scientists calculated just how many times amoebae that arose from a single cell can safely divide before cooperation degenerates into a free-for-all.

The answer turns out to be 100 generations or more.

So population bottlenecks that kill off diversity and restart the population from a single cell are powerful stabilizers of cellular cooperation, the scientists conclude.

In other words our liver, blood and bone cells help our eggs and sperm pass on their genes because we passed through a single-cell bottleneck at the moment of conception.

The social amoebae

Queller, the Spencer T. Olin professor, and Strassmann, professor of biology, moved to WUSTL from Rice University this summer, bringing a truckload of frozen spores with them.

Although they worked for many years with wasps and stingless bees, Queller and Strassmann's current "lab rat" is the social amoeba Dictyostelium discoideum, known as Dicty for short.

The social amoebae can be found almost everywhere; in Antarctica, in deserts, in the canopies of tropical forests, and in Forest Park, the urban park that adjoins Washington University.

The amoebae spend most of their lives as tiny amorphous blobs of streaming protoplasm crawling through the soil looking for E. coli and other bacteria to eat.

Things become interesting when bacteria are scarce and the amoebae begin to starve. They then release chemicals that attract other amoebae, which follow this trail until they bump into one another.

A mound of some 10,000 amoebae forms and then elongates into a slug a few millimeters long that crawls forward (but never backward) toward heat and light.

The slug stops moving when it has reached a suitable place for dispersal, and then the front 20 percent of the amoebae die to produce a sturdy stalk that the remaining cells flow up and there become hardy spores.

Crucially, the 20 percent of the amoebae in the stalk sacrifice their genes so that the other 80 percent can pass theirs on.

When Strassmann and Queller began to work with Dicty in 1998, one of the first things they discovered was that the amoebae sometimes cheat.

Dennis Welker of Utah State University had given them a genetically diverse collection of wild-caught clones (genetically identical amoebae). They mixed amoebae from two clones together and then examined the fruiting bodies to see where the clones ended up. Each fruiting body included cells from both clones, but some clones contributed disproportionately to the spore body. They had cheated.

How can a blob of protoplasm cheat? The answer, it turns out, is many different ways.

"They might," Queller says, "have a mutation that makes an adhesion molecule less sticky, for example, so that they slide to the back of the slug, the part that forms spores."

"But there are tradeoffs," Strassmann says, "because if you're too slippery, you'll fall off the slug and lose all the advantages of being part of group."

Natural born cheaters

Mulling this over, Strassmann and Queller began to wonder if it would be possible to break the social contract among the amoebae by setting up conditions where relatedness was low and each clonal lineage encountered mostly strangers and rarely relatives.

Together with then-graduate student, Jennie Kuzdzal-Fick, they set up an experiment to learn what happened to cheating as heterogeneous (low relatedness) populations of amoebae evolved.

"At the end of the experiment, we assessed the cheating ability of the descendants by mixing equal numbers of descendants and ancestors and checking to see whether the descendants ended up in the stalks or the spores of the fruiting bodies," Strassmann says.

They found that in nearly all cases, the descendants cheated their ancestors. What's more, when descendent amoebae were grown as individual clones, about a third of them were unable to form fruiting bodies.

Many of the mutants, in other words, were "obligate" cheaters. Having lost the ability to form their own fruiting bodies, they were able to survive only by freeloading, or taking advantage of the amoebae that had retained the ability to cooperate.

This result, Queller and Strassmann say, shows that cheater mutations that threaten multicellularity occur naturally and are even favored -- as long as the population of amoebae remains genetically diverse.

What happens in the wild?

But the scientists were aware that obligate cheaters are either very rare or altogether missing among wild social amoebae. They had not found any obligate cheaters in the more than 2,000 wild clones they have sampled.

They also knew that in the wild, the amoebae in fruiting bodies are close kin, if not clones.

What prevents cooperation in wild populations from degenerating into the laboratory free-for-all? Could the difference be that the amoebae in the laboratory were distant relations and those in the wild are kissing kin?

Suppose, the scientists thought, one amoeba ventured alone into a pristine field of bacteria. As it grew and multiplied, making copies of itself, how long would it take for cheating mutations to appear (what was the mutation rate) and how successfully would these mutations proliferate (how strongly would they be selected)?

To establish the mutation rate, Strassmann and Queller together with graduate student Sara Fox ran what is called a mutation accumulation experiment.

In this experiment, amoebae that mutated didn't have to compete against amoebae that were faithful replicators. In the absence of selection, all but the most severe mutations were also reproduced and became a permanent part of the lineage's genome.

The scientists allowed 90 different lines of amoebae to accumulate mutations in this way.

"At the end," Queller says, "we found that among those 90 lines not a single one had lost the ability to fruit. So that's almost 100 lines, almost a thousand generations, so 100,000 opportunities to lose fruiting and none of them did.

"That allowed us, using statistics, to put an upper limit on the rate at which mutations turn a cooperator into an obligate cheater," he says.

The rate was low enough that if fruiting bodies were forming in the wild from amoebae that were all descended from one spore, cheating would never be an issue.

What this has to do with elephants and blue whales

But the scientists were inquisitive enough to ask another, bigger question. They used calculations invented for population genetics to ask how many times the amoeba could divide -- theoretically -- before cheating became a problem.

What if, they asked, we let an initial single amoebae divide until there were as many of amoebae as there are cells as a fruit fly and then transferred one amoeba and allowed it to divide until the daughter colony reached fruit-fly size, and so on?

What if we let the colonies grow to human size? To elephant size? To blue whale size? Would the cheaters bring down the whale-sized Dicty colony?

The answer, it turned out, was no.

A whale-sized Dicty colony is not the same thing as a whale, but nonetheless the experiments suggest how organisms, over the course of evolution, have sidestepped the cheating trap and maintained the levels of cooperation multicellular bodies demand.

"A multicellular body like the human body is an incredibly cooperative thing," Queller says, "and sociobiologists have learned that really cooperative things are hard to evolve because of the potential for cheating.

"It's the single-cell bottleneck that generates high relatedness among the cells that, in turn, allows them to cooperate, " he says.

Our liver cells have no kick against our sperm or egg cells, in other words, because they're all nearly genetically identical descendants of a single fertilized egg.

Wednesday, October 13, 2010

Tiny Creatures: Big Role in Global Carbon Cycle


Two separate research groups are reporting groundbreaking measurements of the fluid flow that surrounds freely swimming microorganisms. Experiments involving two common types of microbes reveal the ways that one creature's motion can affect its neighbors, which in turn can lead to collective motions of microorganism swarms. In addition, the research is helping to clarify how the motions of microscopic swimmers produces large scale stirring that distributes nutrients, oxygen and chemicals in lakes and oceans.
Researchers have mapped the flow field around a swimming Volvox carteri microbe by tracking the movements of tiny tracer particles. The spherical Volvox is swimming towards the top of the image. Streamlines appear as red curves, and the color map corresponds to the fluid velocity. (Credit: K. Drescher, R. E. Goldstein, N. Michel, M. Polin, and I. Tuval, University of Cambridge)

A pair of papers describing the experiments will appear in the Oct. 11 issue of the APS journal Physical Review Letters.

In order to observe the flow that microorganisms produce, researchers at the University of Cambridge tracked the motion of tiny tracer beads suspended in the fluid surrounding the tiny swimmers. They used the technique to study the fluid around two very different types of creatures: a small, blue-green form of algae called Chlamydomonas reinhardtii that swims by paddling with a pair of whip-like flagella, and the larger, spherical alga Volvox carterii that propels itself with thousands of flagella covering its surface.

The tracer beads showed that the two types of organisms generate distinctly different flow patterns, both of which are much more complex than previously assumed. In a related study performed at Haverford College in Pennsylvania, researchers used a high speed camera to track the flow of tracer particles around Chlamydomonas in a thin, two-dimension film of fluid over the course of a single stroke of its flagella.

The studies should help scientists develop new models to predict the fluid motions associated with aquatic microorganisms. The models will provide clearer pictures of the ways microbes mix bodies of water, and potentially offer insights into the role plankton plays in the carbon cycle as it stirs the world's oceans.

David Saintillan (University of Illinois at Urbana Champagne) gives an overview of the microorganism swimming research in a Viewpoint article in the October 11 edition of APS Physics.

Friday, July 16, 2010

Tiny Marine Microbes Exert Influence on Climate


New research indicates that the interactions of microscopic organisms around a particular organic material may alter the chemical properties of the ocean and ultimately influence global climate by affecting cloud formation in the atmosphere.
DMSP
Microchannel used to created patches of DMSP. (Credit: Photo by Tanvir Ahmed and Roman Stocker)

Justin Seymour, a research fellow at the University of Technology Sydney, is the lead author of a paper published in the July 16 issue of Science that describes how a relative of the smelly chemical that sea birds and seals use to locate prey, dimethylsulfide (DMS), may serve a similar purpose at the microbial scale, helping marine microorganisms find food and cycle chemicals that are important to climate.

"We found that ecological interactions and behavioral responses taking place within volumes of a fraction of a drop of seawater can ultimately influence important ocean chemical cycling processes," said Seymour.

Using microfluidic technology, the team of researchers led by Professor Roman Stocker of the Massachusetts Institute of Technology's Department of Civil and Environmental Engineering, recorded microbes swimming toward the chemical dimethylsulfoniopropionate (DMSP) as it was released into a tiny channel occupied by the microbes.

The fact that the microbes actively moved toward the DMSP indicates that the tiny organisms play a role in ocean sulphur and carbon cycles, which exert a powerful influence on Earth's climate. How fast the microorganisms consume DMSP -- rather than converting it into DMS -- is important because DMS is involved in the formation of clouds in the atmosphere. This in turn affects the heat balance of the atmosphere.

Seymour, Stocker, Professor Rafel Simó of the Institute for Marine Sciences in Barcelona, and MIT graduate student Tanvir Ahmed carried out the research in the MIT laboratory of Stocker, who pioneered the use of microfluidics and video microscopy in the study of ocean microbes. The new study is the first to make a visual record of microbial behaviour in the presence of DMSP.

"It's important to be able to directly look at an environment in order to understand its ecology," Stocker said. "We can now visualize the behavior of marine microorganisms much like ecologists have done with macro-organisms for a long time."

To do this, the team recreated a microcosm of the ocean environment using a microfluidic device about the size of a flash drive with minuscule channels engraved in a clear rubbery material. The scientists injected DMSP into the channel in a way that mimics the bursting of an algal cell after viral infection -- a common event in the ocean -- then, using a camera attached to a microscope, they recorded whether and how microbes swam towards the chemical.

The researchers found that some marine microbes, including bacteria, are attracted to DMSP because they feed on it, whereas others are drawn to the chemical because it signals the presence of prey. This challenges previous theories that this chemical might be a deterrent against predators.

"Our observations clearly show that, for some plankton, DMSP acts as an attractant towards prey rather than a deterrent," said Simó, an expert on the role of DMSP in the sulfur cycle, "By simulating the microscale patches of the chemical cue and directly monitoring the swimming responses of the predators towards these patches, we get a much more accurate perception of these important ecological interactions than can be obtained from traditional bulk approaches."

"These scientists have used impressive technology to study interactions between organisms and their chemical environment at the scales they actually take place," said David Garrison, director of the National Science Foundation (NSF)'s biological oceanography program. "The research will give us new insights on the workings of microbial assemblages in nature."

The research also indicates that marine microorganisms have at least one behavioral characteristic in common with larger sea and land animals: we're all drawn to food.

The team plans to extend the research from the laboratory to the ocean environment; the team is working on an experimental system that can be used on board oceanographic ships working with bacteria collected directly from the ocean.

###

Source: "Chemoattraction to Dimethylsulfoniopropionate Throughout the Marine Microbial Food Web," by Justin R. Seymour, Rafel Simó, Tanvir Ahmed and Roman Stocker. Science, 16 July 2010.

Friday, December 25, 2009

First Volume of Microbial Encyclopedia Published


The Earth is estimated to have about a nonillion (1030) microbes in, on, around, and under it, comprised of an unknown but very large number of distinct species. Despite the widespread availability of microbial genome data -- close to 2,000 microbes have been and are being decoded to date -- a vast unknown realm awaits scientists intent on exploring microorganisms that inhabit this "undiscovered country."

From DNA to digital information about the vast unexplored microbial world -- the Genomic Encyclopedia of Bacteria and Archaea (GEBA) pilot project led by the DOE Joint Genome Institute (DOE JGI), is beginning to fill in the underrepresented branches of the tree of life. (Credit: Roy Kaltschmidt, Lawrence Berkeley National Laboratory)

Two thousand years after Pliny the Elder compiled one of the earliest surviving encyclopedic works, and in the spirit of his goal of providing "light to the obscure," the Department of Energy Joint Genome Institute (DOE JGI) has published the initial "volume" of the Genomic Encyclopedia of Bacteria and Archaea (GEBA). Presenting a provocative glimpse into this uncharted territory, an analysis of the first 56 genomes representing two of the three domains of the tree of life appears in the December 24 edition of the journal Nature.

Wednesday, November 4, 2009

Inefficient Selection: New Evolutionary Mechanism Accounts For Some Of Human Biological Complexity


A painstaking analysis of thousands of genes and the proteins they encode shows that human beings are biologically complex, at least in part, because of the way humans evolved to cope with redundancies arising from duplicate genes.

Genomic and proteomic analysis has found a new evolutionary mechanism that accounts for some of the biological complexity of human beings. (Credit: iStockphoto/Liang Zhang)



"We have found a specific evolutionary mechanism to account for a portion of the intricate biological complexity of our species," said Ariel Fernandez, professor of bioengineering at Rice University. "It is a coping mechanism, a process that enables us to deal with the fitness consequences of inefficient selection. It enables some of our proteins to become more specialized over time, and in turn makes us more complex."