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Old 12-28-2004, 05:17 AM   #1 (permalink)
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Artificial Life

This Article from BBC News

Quote:
Researchers at Rockefeller University in the US have made the first tentative steps towards creating a form of artificial life.

Their creations, small synthetic vesicles that can process (express) genes, resemble a crude kind of biological cell.

The parts for their "vesicle bioreactors", as they call them, all come from diverse realms of life.

The soft cell walls are made of fat molecules taken from egg white. The cell contents are an extract of the common gut bug E. coli, stripped of all its genetic material.

This essence of life contains ready-made much of the biological machinery needed to make proteins; the researchers also added an enzyme from a virus to allow the vesicle to translate DNA code.

When they added genes, the cell fluid started to make proteins, just like a normal cell would.

A gene for green fluorescent protein taken from a species of jellyfish was the first they tried. The glow from the protein showed that the genes were being transcribed.

With a second gene, from the bacterium Staphylococcus aureus, the researchers got their cells to make small pores in their walls.

These let nutrients in from the surrounding "soup", so that the cells could function, in some instances, for several days.

Albert Libchaber, who heads the project, stresses that these bioreactors are not alive - they're performing simple chemical reactions that can also happen in cell-free biological fluids.

But the research is one strand in a new field called synthetic biology, where the aim is to re-design entire organisms, or recreate them from scratch.

The bio-entrepreneur Craig Venter, who headed the commercial venture to decode the human genome, is currently trying to strip a bacterium down to the minimum set of genes needed for survival.

Two years ago, another team showed that polio viruses could assemble themselves from off-the-shelf chemical components mixed in a test-tube.

And several chemists are exploring the kinds of chemical reactions that may have preceded life.

Albert Libchaber's hope is to build up towards a minimal synthetic organism, with a designed cell wall, and a mixture of gene circuits that would let it maintain itself like a living cell.

As these constructs become more lifelike, the rest of us will have to start rethinking the nature of life.

"This is rather philosophical," says Dr Libchaber.

"For me, life is just like a machine - a machine with a computer program. There's no more to it than that. But not everyone shares this point of view," he told the BBC.

He also stresses that there is no danger in the experiments. Not only are his cells artificial, they can function only in the nutrient medium he supplies them.

He said: "If you take our system out of its environment, it just doesn't function."

Details of Libchaber's work with Vincent Noireaux have been published by the journal Proceedings of the National Academy of Sciences.
My personal take on this? I'm excited - Firstly by the news that it has been shown that life can indeed self-assemble from a chemical 'soup' and more so by the notion of designing cells that could be used to solve everyday problems in highly efficient and more organic ways. City liver anyone? Other uses might be the production of chemicals and enzymes to be used in medicine, among many many other exciting ideas.

Last edited by zen_tom; 12-29-2004 at 06:14 AM..
 
Old 12-28-2004, 05:44 AM   #2 (permalink)
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Have you read Michael Creighton's "Prey"? Similar premise with scary consequences.
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Old 12-28-2004, 06:59 AM   #3 (permalink)
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No I havn't, though I do remember something in William Gibson's Idoru where a part of the Tokyo skyline was being transformed by some form of nanotechnology that was being used to erect new cheap housing - it was just a background element though, and nothing horrendous occured.
 
Old 12-28-2004, 07:29 AM   #4 (permalink)
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I agree with you zen_tom about this being good research for life assembling itself from a chemical soup. It shows that it is possible, not just an idea.
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Old 12-29-2004, 12:21 AM   #5 (permalink)
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That's really interesting. Does anyone have any more information on this?
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Old 12-29-2004, 04:30 AM   #6 (permalink)
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Now THATS cool. And assembling a polio virus from standard issue chemicals, thats just way, way cool.
COOOL.
Can't wait to see where they go with it, maybe we'll have some kinda artificial bloodstream-dwelling cells that regulate insulin for diabetics? That'd be wicked hot.
On thought, they would probably get destroyed by antibodies just for being there... maybe theres a way to grow the artificial cell from a particular host dna.... hmmm.
I'm not very well versed in biology... I could be talking shit.
Failing to think of more practical applications.... anyone?
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Old 12-29-2004, 06:13 AM   #7 (permalink)
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I was thinking of industrial applications in the chemical industries - these things are basically tiny triggerable chemical factories.

So you can use them to produce chemicals in ways and places that you couldn't do before, or where the introduction of bacteria might cause problems.

One thing might be a special form of plastic seeded with these things that liquefies in the presence of an enzyme. Add another enzyme and the plastic hardens again. So in the recycling centre, you spray the enzyme onto the rubbish, the plasitc dissolves and is collected in a pit on the floor, cleaned, sent to the bottle factory, poured into moulds, given a dose of the hardening enzyme and pop, there's a new bottle.

Or you could develop cells that secrete calcium carbonates (borrowed from corals, or shelled molluscs) in order to build (grow) structures that wouldn't require workmen except for wiring or plumbing etc.

Later versions of these cells might be able to change shape in response to an electrical signal, the way muscle cells do. These types of cells could be used in machenery that mimiced the mechanics of the body.

The possibilities are pretty vast - I suspect though that currently they are difficult to produce in large numbers - a problem that might be solvable if they were built to self-replicate in addition to their other functions. What might happen then? A whole new branch of life?

Last edited by zen_tom; 12-29-2004 at 06:16 AM..
 
Old 12-29-2004, 07:16 AM   #8 (permalink)
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i think yu guys are going a bit far with this. these are brety limited structures and they don't have any DNA according to the article. all that they are capable of doing is to express a single protein/enzyme. it is much harder to enginer an entire organism because you have to work with a lot of genes, humans have 30,000 genes but we use at least 100,000 proteins/enzymes. this means we have genes that code for more than one protein. also i wouldn't call this artifical life as muc as i would call it a new species, because unless i am misunderstanding the article all they did was create a cell wall, take the organelles from e coli and then strip the genetic information so they could produce whatever they want. they didn't create anything artifical they just recombined what already existed.
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Old 12-29-2004, 10:32 AM   #9 (permalink)
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They are machines that construct complex proteins from the ingredients in the viscinity based on the blueprint found on an injected strand of DNA. Yes it is very basic(compared to what we're used to seeing in nature), and yes they are constructed from pieces farmed from elsewhere.

An analogy might be that each of these machines is like a cassette player (with no buttons) that plays the song of whatever cassette is put inside them once its plugged in.

The next step is to allow the cassette player to read longer tapes containing instructions (fast forward, rewind etc) as well as songs that respond to more complex button pushing from outside.

The analogy breaks down at the next step, since that would involve the cassette player reading the instructions on the DNA that tell it how to build another cassette-
player containing the blueprint cassette.

So 'life' may too strong a term, perhaps 'machines mimicing the processes of life' is more fitting. I do see the boundaries blurring considerably as more complex versions of these things are developed. In my opinion, this could be the start of an exciting new technology that really could change the world.
 
Old 12-29-2004, 02:54 PM   #10 (permalink)
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Quote:
Originally Posted by fuzyfuzer
i think yu guys are going a bit far with this. these are brety limited structures and they don't have any DNA according to the article. all that they are capable of doing is to express a single protein/enzyme. it is much harder to enginer an entire organism because you have to work with a lot of genes, humans have 30,000 genes but we use at least 100,000 proteins/enzymes. this means we have genes that code for more than one protein. also i wouldn't call this artifical life as muc as i would call it a new species, because unless i am misunderstanding the article all they did was create a cell wall, take the organelles from e coli and then strip the genetic information so they could produce whatever they want. they didn't create anything artifical they just recombined what already existed.
A journey of a thousand miles begins with a single footstep.


You could take the precursor to pretty much any modern technology, look at it in its crudest, clunkiest form and scoff at it.
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Old 12-29-2004, 03:11 PM   #11 (permalink)
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Quote:
I'm excited - Firstly by the news that it has been shown that life can indeed self-assemble from a chemical 'soup' and more so by the notion of designing cells that could be used to solve everyday problems in highly efficient and more organic ways
I agree with the latter, but not necessarily with the former. The chemical 'soup' that we're thinking of is a set of already-complex and semi-ordered molecules. Even if science could manage to get these primitive cells to self-replicate, this new discovery in no way lets us claim that life can arise spontaneously from random components, since the alleged soup had an intelligent scientist choosing a specific chemical composition. Of course, if this is not what zen_tom meant in making this statement, then I'll just sit down and be quiet.

As to the designer cells.....that would be excellent. It would be a great opportunity to learn much about life and its complexity.
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Old 12-30-2004, 05:34 AM   #12 (permalink)
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The soup of complex molecules from which life is thought to have emerged is something that brings itself about naturally. How? Because the reactions that produce those types of molecules are catalysed by the products of those reactions. In simple terms(I hope), complex molecules are more likely to be catalysts for the formation of molecules similar, or more complex than themselves, and because of this, any formation of such a self-catalysing molecule will propagate itself rapidy through the system, providing the chances for further degrees of complexity to occur, which will then further propagate, specialise and in turn add a new level of complexity...and so on.

Order comes for free in this universe.
 
Old 12-31-2004, 01:43 AM   #13 (permalink)
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Quote:
Originally Posted by zen_tom
Order comes for free in this universe.
I think the laws of thermodynamics would disagree.

Unfortunately, I don't know enough about biology (yet) to say anything more than has already been said.
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Old 12-31-2004, 06:14 AM   #14 (permalink)
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Damn those laws of thermodynamics!

No but seriously, the auto-formation of increasing layers of complexity is something that temporarily flouts the laws of thermodynamics every day. Every time I pour a fresh cup of coffee, the lawyers in the court of thermodynamics leap up and shout 'Objection!' - and yes, they'll get me in the end, but not while I'm still alive and breathing.
 
Old 01-03-2005, 08:13 PM   #15 (permalink)
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My question is; once alive, is it still artificial?
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Old 01-03-2005, 08:41 PM   #16 (permalink)
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Quote:
Originally Posted by zen_tom
Damn those laws of thermodynamics!

No but seriously, the auto-formation of increasing layers of complexity is something that temporarily flouts the laws of thermodynamics every day. Every time I pour a fresh cup of coffee, the lawyers in the court of thermodynamics leap up and shout 'Objection!' - and yes, they'll get me in the end, but not while I'm still alive and breathing.
Huh? Reference? Link?
As far as I know, the laws of thermodynamics are inviolable.
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Old 01-05-2005, 02:31 PM   #17 (permalink)
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Quote:
Originally Posted by fckm
Huh? Reference? Link?
As far as I know, the laws of thermodynamics are inviolable.
It's true. They are.
But in a very simplified manner: you absorb low entropy energy from the sun (or eat somehting which did this, or eat something which ate somehting that did this, or....)
Any energy you then release back into the environment is in the form of high entropy energy.
So though you appear to be "temporarily flouting the laws of thermodynamics", nature ensures that all of the check and balances are in place so that the environment pays the penalty.
The laws of thermondynamics only hold rigourously in a closed system, and you are not a closed system. You interact with your environment.
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Old 01-05-2005, 04:29 PM   #18 (permalink)
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The second law of thermodynamics states that over time, entropy increases, and ordered systems decrease.

So for example it's easier to break an egg than it is to put the pieces back together again; a concentration of heat in a pan will tend to dissipate into the air if left off the stove; and the pure gin will dissipate into the tonic water from the moment it is poured into the glass, as will the water from the melting ice.

What the second law tells us is that our bodies will wear out and die, that our strongest constructions will crumble, that our hard-drives will eventually crash.

However, while nature imposes these restrictions on life, purity, order and tidyness, it also, in the realms of self-organising processes, provides a means of countering these effects. The egg must be laid before it has a chance to be broken, the pan heated before it is allowed to cool, and the gin distilled before it has a chance to addle our conciousness. While those processes appear to be artificial and not of scientific interest, they are real natural processes (albeit of a higher order of complexity than our scientists prefer when doing their sums)

The universe creates order through the simplest of means - it turns out that some forms of organisation in turn help the formation of similar forms of organisation. Crystals form around a seed, planets form from within clouds of dust, stars ignite and provide energy to fuel organic reactions - at each step, the second law is being *temporarily* ignored.

If the universe is a closed system, and if the second law of thermodynamics is correct (and if our assumptions about time are correct), then our future will end as an amorphous, mixed-up place with no centre, no organisation, no concentration of anything that could be considered a feature. Some people think that a black-hole is an alternate description of a high-entropy system, but I don't know enough about that to comment.

However, there is this unrefutable ability of nature to balance it's own destructive power with this counter, organising, building one. We're living in a world where organisation is winning over disorganisation. Individually yes we all continue to die, but if the trend that we see on Earth could be applied to the rest of the universe (and this is a very iffy supposition to make) and organisation and self-replication continues to thrive in a universe that slips into disorder so readily, might the constructive force eventually outweigh the destructive one?

I know, it's late and this is starting to sound mystical, but coming back down to earth - my point is that if the 2LoTD says that things tend to disorder, there ought to be another law that describes this evident property of things to spontaneously order themselves. Here on earth that second property isn't doing too badly at all.
 
Old 01-05-2005, 05:24 PM   #19 (permalink)
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Lets just say that I'm thinking about a doctorate in biology now.
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