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Old Materials Resurface For "Prebiotic Soup"
Posted by
kdawson
on Fri Oct 17, 2008 09:12 AM
from the do-not-clean-out-the-fridge dept.
from the do-not-clean-out-the-fridge dept.
AliasMarlowe writes "Stanley Miller performed the famous experiments in the 1950s showing that amino acids and other building blocks for biomolecules could be produced by passing lightning through a mix of simple hydrocarbons, water vapor, and ammonia (thought at the time to approximate the Earth's early atmosphere). Other experiments approximated the environment around volcanic eruptions, but those results were not published. Following his death last year, a former student discovered the materials from those experiments, in labelled vials. Analysis of this material indicates that the conditions around volcanic eruptions (still thought to be representative of such events in the early Earth) resulted in a higher yield of amino acids than the simple lightning experiments, and resulted in a greater variety of amino acids." Pharyngula has a discussion of the Science paper, including a graph of the amino acids produced.
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Campbell's Condensed Prebiotic Soup (Score:5, Funny)
Just add volcano.
Space (Score:2, Interesting)
We have since discovered that complex organic molecules form even in space [wikipedia.org].
IANAMB (Score:3, Interesting)
Re:IANAMB (Score:5, Insightful)
IAANAMB but if you think about it, changes in composition would not void the findings in the experiment. If after the initial experiment the samples were kept in closed vials and out of sunlight, then 60 years later were analyzed for content and the amino acids were found that means one of the following: Either the amino acids were formed in the volcano-like conditions of the original experiment, something more complex was formed in the original experiment and broke down to more simple amino acids over time, or nothing much was formed in the original experiment, but in the ensuing 60 years something reacted to form the amino acids. All of these presuppose the formation of amino acids in either prebiotic earth conditions or sealed-vial-kept-in-a-dark-closet conditions. It would be more surprising if they formed under the latter, than under the former conditions.
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Re:IANAMB (Score:5, Insightful)
Or, we have more accurate methods of detecting amino acids in 2008 than in the mid 20th century.
Also, keep in mind that they're comparing modern day analysis of sample B to 60 year old analysis of sample A.
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Re: (Score:2)
as long as they where sealed.. even in the sunlight it would be a valid finding.. as last checked the sun is older than earth and there for would have be present
Re: (Score:3, Interesting)
The "volcanic conditions" basically involves more access to similar compounds (sulfur, methane, nitrogen), along with abundant energy (heat). Most of the amino acids will form on their own, this we already know. It just takes longer at a lower temperature. So, you can determine how much change should have occurred based on previous estimates and the amount of energy available to the samples, then determine how they performed over 60 years in a closet, then determine if that expected rate is fitting or not.
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Re:IANAMB (Score:5, Informative)
The distribution of amino acids is quite interesting. Eight of the amino acids (glycine, alanine, valine, serine, phenylalanine, aspartic acid, and glutamic acid) are from the 20 "standard" amino acids directly coded for in DNA. Seven more are isomers, close homologs, or simple derivatives of the standard seven (isovaline, 2-methylserine, etc.). Ornithine is not found in proteins, but is found as an intermediate both the natural synthesis and breakdown of other amino acids. It is curiously enough the only amino acid found in the vial which is a base- I would have expected more, given all the ammonia in the experiment atmosphere. I would have expected glutamine and asparagine as well, but they're pretty fragile, and if present, may have been lost in the workup.
Five are aminobutyric or aminoisobutyric acids, which are also not coded for by DNA, but are involved in biochemical processes (the best known example is gamma-aminobutryric acid, GABA, a neurotransmitter). No sulfur in the vial, so the absence of cysteine and methionine is unsurprising. Proline is absent, but in organisms, it is formed from an enzyme-catalyzed ring formation from glutamic acid, so it may not form easily in test tubes.
Phenylalanine was the only aromatic amino acid found, which is unsurprising, given the complexity- in organisms, they tend to be synthesized by multistep enzyme-catalyzed routes, and most organisms high on the food chain have lost this ability. Notably, phenylalanine seems to be present in the vial at about one-millionth the concentration of glycine, so its production is a pretty rare event. And all of the amino acids produced were racemic mixtures, whereas nearly all amino acids utilized in nature are the L-enantiomer. It is still a mystery as to when homochirality first arose.
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So... We came from volcanos? (Score:5, Funny)
Great, just add more fuel to the Scientology fire.
Re:So... We came from volcanos? (Score:5, Funny)
Great, just add more fuel to the Scientology fire.
We setting scientologists on fire now? I missed this memo!
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Re:So... We came from volcanos? (Score:5, Funny)
We needed a memo?
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First cell walls (Score:5, Interesting)
Here's an interesting philosophical question. After the first autocatalytic sets and simple replicators, but before the first cell walls, was the entire Earth a single organism?
I have cell walls (Score:2, Funny)
And I am considered a single organism.
Re:I have cell walls (Score:5, Funny)
Animals don't have cell walls
If that were true, how do you explain zoos?!
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Re: (Score:3, Informative)
I don't remember what I've been told at 9th grade, but as of now (2008) there's not much about "biologists having cracked the problem of life". And unlike you, I'm constantly dealing with these matters (IAAMBAABC, where "AABC" stands for "and a biochemist").
Undersea smokers..... (Score:4, Interesting)
It sounds like it would be interesting to check the amino acids and genome of the life that exists surrounding the undersea vents. Since our oceans are no longer "prebiotic soup", there probably won't be anything truly remarkable (previously unknown amino acids in the DNA for example), but if there is anything, that would be an incredible breakthrough.
Re:Undersea smokers..... (Score:5, Funny)
As a 60-a-day Marlboro man I regret the half hour lost to smoking every time I go for a swim, so you can image the excitement with which I opened your post. Only to be confronted with something about soup. God, I need a smoke.
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Re: (Score:3, Informative)
you mean the DNA of these guys [calacademy.org]?
Re: (Score:3, Informative)
It sounds like it would be interesting to check the amino acids and genome of the life that exists surrounding the undersea vents. Since our oceans are no longer "prebiotic soup", there probably won't be anything truly remarkable (previously unknown amino acids in the DNA for example), but if there is anything, that would be an incredible breakthrough.
If they found amino acids in the DNA (previously unknown or not) it would be a remarkable discovery. Amino Acids are the building blocks of proteins. DNA stands for Deoxyribonucleic Acid a completely different chemical. To date, no amino acids have been discovered in any DNA.
Amazing how much gets lost or forgotten (Score:5, Interesting)
My tutor at university used to get us to produce reports on old papers from the really early days of compsci, the 50's and 60's.
What amazed me was how many great ideas were put forward which just couldn't have been implemented successfully at the time, and how many have turned up again many years later as "new" ideas.
There are many ideas that were invented decades ago, but people have just forgotten about.
It makes you wonder what great ideas and discoveries are lying hidden in old journals that no-one ever reads.
Re: (Score:2)
Can you give some examples?
Re:Amazing how much gets lost or forgotten (Score:4, Interesting)
Not off the top of my head, it's been almost ten years since I left uni.
However I do remember reading a paper about what is now called "life logging", storing everything you do and recording, dating back from the 1960's. It was totally impractical then.
One good example of what I mean is the so-called "Mother of all Demos", given by Doug Engelbart in 1968. Look it up on YouTube, I'm sure the video will be up there. It demonstrated concepts that were well ahead of their time, some of which have only recently entered the wider world. Check it out, it's a fascinating video.
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Re: (Score:3, Informative)
Wait, I remember this one... (Score:3, Insightful)
Amazing how much of the stuff in high school biology texts turns out to be not-quite-as-advertised.
Yield of Amino Acids (Score:5, Funny)
You know what else gives a higher yield of amino acids? 1 egg, 1 sperm, and 9 months.
Re:Yield of Amino Acids (Score:5, Funny)
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Re:Yield of Amino Acids (Score:4, Funny)
How 'determined' are the sperm?
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Warning: religious comment. Proceed with caution. (Score:5, Interesting)
I would say this is another potential blow to young-Earth creationists, but I think most of them aren't going to give this particular experiment much credit. It's unfortunate that we can't just look at the results of scientific experiments at face value without requiring a religious interpretation tacked on to the end. We'd all get along much better that way. Theists could do generally accepted scientific study without getting discredited for their beliefs. On the other hand, enough science already goes on with predetermined goals in mind, so maybe it's a moot point.
Disclaimer: I am a creationist, although not a young-Earth creationist, and I don't disagree with most of the tenets of evolution. I won't engage in debate over the merits of evolutionist vs. creationist perspectives, because there's little to no meaningful debate to be had. At this point, both sides of the debate are taking whatever evidence comes up and claiming it supports their perspective.
In other words, don't expect me to argue over the existence of God in this thread. Interesting findings, though!
Re: (Score:2, Funny)
I would say this is another potential blow to young-Earth creationists, but I think most of them aren't going to give this particular experiment much credit. It's unfortunate that we can't just look at the results of scientific experiments at face value without requiring a religious interpretation tacked on to the end. We'd all get along much better that way. Theists could do generally accepted scientific study without getting discredited for their beliefs. On the other hand, enough science already goes on with predetermined goals in mind, so maybe it's a moot point.
Disclaimer: I am a creationist, although not a young-Earth creationist, and I don't disagree with most of the tenets of evolution. I won't engage in debate over the merits of evolutionist vs. creationist perspectives, because there's little to no meaningful debate to be had. At this point, both sides of the debate are taking whatever evidence comes up and claiming it supports their perspective.
In other words, don't expect me to argue over the existence of God in this thread. Interesting findings, though!
Your comment proves my point! I win! You lose!
Re: (Score:2, Insightful)
It's unfortunate that we can't just look at the results of scientific experiments at face value without requiring a religious interpretation tacked on to the end
Why not? That's what scientists do. It's almost everyone else who has that problem.
Re:Warning: religious comment. Proceed with cautio (Score:5, Insightful)
Take Christianity and The Big Bang theroy. They work out just fine, so long as the Christian can accept that the Bible may not be a 100% accurate portrayal of how God did it. And the science side doesn't get up in arms with the idea that god wrote the laws of the universe. You know, maybe he dumbed it down a bit so that his bronze age audience could understand it.
My usual view of it is about:
God: In the beginning there was nothing, not time, not space, truly absolutely nothing.
Well, the quiet was nice, but it got boring fast. So, I figured I would write up the basic laws to run a universe, kick start it and see what that got me.
Abraham: Nothing, Universal Laws, kick start, got it. But what do you mean by "no time", how can you have no time?
God: Just go with me on that one, you'll figure it out later.
Abraham:OK.
God:So, the Universe exploded into existence, as it expanded a high energy plasma began to condense down into quarks, anti-quarks and a whole host of other sub-atomic particles. And it was truly chaos. Particles and their anti-particles were colliding and mutually an... Yes, what it is Abraham, why are you raising your hand, do you need to pee?
Abraham: Um, I think you lost me at about "Plasma", and I know what a "cork" is, but what's and "anti-cork", it is some kind of spout?
God: Oh right, a few thousands years early on those, aren't I? Um, how are you with Calculus?
Abraham: Calcu-what?
God: Non-euclidean algebra?
Abraham:
God: Right, fuck it. New clay tablet. In the beginning I said, "Let there be light!" and there was, and it was good. Still with me?
You know, maybe the Bible/Koran/Torah aren't really literal versions of what happened. Maybe they are just metaphors which worked for early man, and God hasn't bothered to update them.
And no matter how fun it is to pick on religious folk, there is really no harm in them believing that there is an invisible sky wizard behind everything. As long as they aren't forcing that belief on others. Or trying to harm others who disagree with them.
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Re: (Score:3, Informative)
I can't understand one can be an intelligent being and believe in $Deity. The quick answer is: in light of religion, independant thought dies.
On a side-note, I can't think of a reason why you would want to conjure up a 'being' to create our universe. Where did the being come from? What created that being? If that being could exist forever out of nothing, then why not the universe by and of itself?
You could do worse than to read "The God Delusion" by Richard Dawkins for a more thorough argumentation, if you
Re:Warning: religious comment. Proceed with cautio (Score:5, Interesting)
Why would it be a blow to anyone especially the loony creationists? This experiment, looking at it a few years later, didn't prove anything but that scientist also can be caught in hypes. Even 60 years later after these 'ideal' environments were defined and many more experiments with it, nothing more but amino acids have been created in a lab. To go from an amino acid to a single living cell is a big jump. A lot of those amino acids have to line up perfectly into things called RNA and DNA and then they have to all come together and somehow be jolted to life and THEN you have a single cell. Then that single cell has to be strong enough and survive long enough in that environment (whether it be lightning or volcanoes which are both very violent and tend to destroy stuff) it was created in and then it has to somehow figure out how to reproduce and in all that time, these 'ideal' environments have to calm down to a certain level so multi-celled organisms can survive.
This hypothesis has very little credibility now in the 'real' scientific world. It might still be in high school and college textbooks and some of you armchair scientists might know of them but the probability of it actually happening that way is so very low that even hardcore (read: religionist) evolutionists just look at it and say 'meh, let's look at something else'.
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Re:Warning: religious comment. Proceed with cautio (Score:5, Informative)
Um, say what? 'Which' particular hypothesis has very little credibility? Abiogenesis [wikipedia.org]? Just because it's a difficult field of study doesn't mean it is either uninteresting, unfunded or un-anything. For your edification and enjoyment a few crackpot lectures [rockefeller.edu].
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Re: (Score:3, Interesting)
That people still believe in it or study it doesn't mean it's not on shaky grounds. There is still ample study being funded that tries to defy both standard and quantum physics (creation of energy out of nothing) or that tries to defy science (some states in the US try to tell the world was created in literally 7 days and the earth (and everything else) is only 8000 years old). Abiogenesis was believed in by Greeks but Pasteur eventually found out that nothing comes out of nothing.
The biggest problem with a
Re: (Score:3, Interesting)
HIV is actually a very bad example. A majority of HIV researchers now agree that HIV is a Stochastic mutator - that is, it does genuinely random mutation, in this case between at least 4 subtypes (This theory isn't accepted universally among HIV researchers yet, but it seems to be surviving any challenges quite well, and the people who are becoming supporters are well established researchers, solid main-stream PhD Biologists and even the Nobel winners in the field.).
For a Stochastic Mutator,
Re: (Score:3, Interesting)
"Intolerant fundies are simply a very vocal minority."
Unfortunately you're not even on my level... it would take years of reading for you to catch up unfortunately, when I mean "uninformed" I mean lacking in insight into humanity and human nature and it's inherent defectiveness. It's not merely intolerant fundies, go look at the ravings of mr scot here: http://www.uncommondescent.com/ [uncommondescent.com]
These people still believe and spread things that are not true and fuckup their kids lives with their rather primitive mora
Spontaneous existance of life (Score:2, Interesting)
I was thinking about this subject the other day, and I thought: life must have spontaneously appeared out of structures that were self-assembling and contained RNA or DNA and proteins. Why doesn't this spontaneously appearing of life happen continuously all around us, or at least in suitable places on Earth? And is the fact that this doesn't happen continuously, despite the fact that we seem to have many suitable places on this planet, a strong indicator that life as we know it may not have started on this
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Re:Spontaneous existance of life (Score:4, Insightful)
Well virtually every cubic centimeter on the planet already contains some form of life already. Chances are a random collection of amino acids, phosphates, and maybe even a base sugar or two that could have eventually possibly evolved into a totally new life form before life existed will actually just get swallowed up by a passing bacterium or amoeba today.
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Re:Spontaneous existance of life (Score:5, Interesting)
Yes, the original pre-biotic soup of life likely contained a bunch of RNA/DNA pre-cursor nucleotides as well as amino acids, sugars and who knows what else. I'm sure many different self-replicating molecules competed for these pre-cursors but according to the RNA-World hypothesis, RNA was able to out-compete other strategies (RNA it turns out does a halfway decent job of storing genetic information as well as catalyzing reactions). The theory goes that RNA eventually became the dominate self-replicating molecule and at some point these RNA molecules shifted the responsibility of storing genetic data to DNA (which is more stable and less prone to replication errors) and shifted enzymatic activity to proteins. I find this hypothesis fairly elegant as this kind of evolution explains RNA's current function in modern cells - as an intermediary between DNA and proteins. Also, that ribosomes still use RNA (rRNA) for enzymatic assembly of proteins with the help of tRNA to fetch the amino acids and mRNA to carry the genetic information from the DNA to the ribosomes. RNA's central role in the creation of proteins seems to imply it had the initial role of genetic storage and enzymes before it outsourced it to DNA and proteins.
I am sure there are plenty of instances since modern cells became prevalent of abiotic formation of complex molecules but they serve as nothing but a snack for modern bacteria.
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Wait... What? (Score:4, Funny)
Following his death last year, a former student discovered the materials from those experiments, in labelled vials.
So the former student died, was placed in labeled vials and then made this discovery? That is simply astounding.
Re:Ancient Atmosphere (Score:5, Insightful)
I find the theory that the universe and earth are fine tuned for life on this planet a ludicrous example of rectal/cranial inversion.
The assumption that the conditions on the planet earth are created just so current life forms can exist presumes that previous life on this planet could have existed in the current conditions. The fossil records seems to indicate that this is not correct.
Life exists here because it formed here. Had it formed on some other planet (and it might have) then it would have formed to suit that environment as if it had been fine tuned for life. Creatures that live on the ocean floor by thermal vents live in an environment that would kill surface lifeforms almost instantly. How is this 'fine tuning' anything? It isn't. Lifeforms evolved to suit a particular environment, not the other way around. Intelligent Design is ludicrous. Ever hear of congenital deformities? With every discovery of a link between genetics and human behavior and disease, ID loses even more. It doesn't appear to be that complex or even intelligent of a design. In fact, more and more it looks like there was no design, that it was all done accidentally, incrementally, and haphazardly. I don't think the appendix was part of the great design for modern man. How many of us actually use or still have wisdom teeth? How are your tonsils doing? Yes, all part of a wonderful design. Are you genetically predisposed to being fat? Gay? Have heart attacks? Cancer? Yes, a wonderfully intelligent design.
so... NO, this discovery does NOT support ID. It supports the theory that life on Earth is a wonderful and amazing accident.
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Re:Ancient Atmosphere (Score:4, Insightful)
Life exists here because it formed here. Had it formed on some other planet (and it might have) then it would have formed to suit that environment as if it had been fine tuned for life.
The best phrasing I've heard for that (may have come from a /. sig - I don't recall) was:
Remarking that the earth is perfectly suited to support its inhabitants is like a puddle of water remarking that its pot hole is perfectly contoured to its shape.
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Re:Ancient Atmosphere (Score:4, Funny)
Oh, and Slashdotters - remember the 'offspring' part. That's important.
You're doomed.
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Re: (Score:3, Interesting)
Don't take it personal. I tried to upset/insult as many groups with evidence of genetic links to their 'situations' as I could think of in a few seconds. Secondly, I did not say it was a disease or flaw, it was a question about genetics, and in that comment more specifically about the link between genetics and the less common sexual orientations. In particular, someone looking to use this to support ID would have to admit that I'm right, or god's plan/design is wrong/imperfect... either that or that there i
Re:Ancient Atmosphere (Score:5, Interesting)
Cyanide is toxic because it disrupts aerobic respiration. Specifically it inhibits cytochrome C oxidase. I find it highly unlikely that A) primitive life was aerobic (in fact we KNOW it was not, since there was no free oxygen in the first place) and B) even if it was, that it would possess this enzyme. Calling cyanide an "antithesis" of life is a bit overboard.
The same argument goes for formaldehyde. Just because something is toxic to you or me doesn't necessarily mean it would be toxic to some extremely primitive life form. Generally life will make use of what is at hand. For all we know, early life DEPENDED on cyanide.
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Re: (Score:3, Insightful)
ever heard of the law of extremely large numbers?
if probability is 1 in 10^23 and there are 10^26 trials then you should, statistically speaking, have approximately 10^3 occurances
people also seem to think the real world is stuck to doing serial "trials" when in reality it is massively parallel.
PS: random assembly can lead to self replicating molecules in a soup containing the appropriate precusors, it's been replicated i just don't have a link ATM
Re:Still need template.... (Score:4, Interesting)
> people also seem to think the real world is stuck to doing serial "trials" when in reality it is massively parallel.
But conversely, many people also to fail to realise that the parallelism of the physical world is tiny and insignificant compared to the combinatorial explosion that comes about when you consider the number of ways to combine atoms into molecules. Unfortunately, we don't really have much of a handle on what proportion of the space of possible molecule sets is occupied by autocatalytic ones. If it's 1 in 10^100, say, that a universe with 10^80 particles starts looking like a very small place.
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