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Post by Avatar »

Interesting topic ineed Fist. I think I'll have a stab at it, without, of course, any more qualification than you have in the topic, and with an idea as clear as yours as to where this is going. ;)

If I can quickly break down your basic premise here, (the one you're operating from for the purpose of this discussion), you're saying that this information system is so complex and wide-ranging, contains, in essence, so much information, that you can't see how it could be random. Right?

So let's look at the nature of an information system...what does it do? It stores information, right? Let's not worry about what type of information at this stage. It also allows that information to be retrieved and used, right?

Now, let's forget that proto-ancestor, and look even further back, and more broadly...anything that reproduces must contain information that would allow it to be replicated, right? Rocks don't need that information, (except that they do contain it in a holographic, and entirely unrelated to this thread, sense ;) ), but tree's do, and that information is stored in the seeds, right?

Now if we go back toward that first bunch or signle-celled life, there's going to be a whole lot less information. Just enough to produce another single cell, and the DNA of that cell is going to be fairly limited, simple, and uncomplicated, wouldn't you say? That's the cell's "seed."

As life evolved, it became more and more neccessary to include even more complex information, which was added, bit by bit, to the "seed."

See where I'm going with this? To say, "look how complicated and intricate this information system is" may be to miss the possibility that the complexity itself evolved naturally, as the evolution changed the information and added to it.

It didn't have to start out so complicated. It may even have started as that "holographic" information system that the rock contains...every part is the same as the whole. Look at starfish: Cut one in half, and you get two starfish.

The requirement for more storage, as life became more complicated, may simply have caused life to keep adding information, "building" itself a better system.

What do you think? :D Just speculating here, no idea of the accuracy and validity of any of these thoughts.

PREBE!!! :lol:

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Post by Esmer »

looks pretty rock solid. thats going to take some chipping, --A. 8)
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Post by Xar »

Avatar wrote:Interesting topic ineed Fist. I think I'll have a stab at it, without, of course, any more qualification than you have in the topic, and with an idea as clear as yours as to where this is going. ;)

If I can quickly break down your basic premise here, (the one you're operating from for the purpose of this discussion), you're saying that this information system is so complex and wide-ranging, contains, in essence, so much information, that you can't see how it could be random. Right?

So let's look at the nature of an information system...what does it do? It stores information, right? Let's not worry about what type of information at this stage. It also allows that information to be retrieved and used, right?

Now, let's forget that proto-ancestor, and look even further back, and more broadly...anything that reproduces must contain information that would allow it to be replicated, right? Rocks don't need that information, (except that they do contain it in a holographic, and entirely unrelated to this thread, sense ;) ), but tree's do, and that information is stored in the seeds, right?

Now if we go back toward that first bunch or signle-celled life, there's going to be a whole lot less information. Just enough to produce another single cell, and the DNA of that cell is going to be fairly limited, simple, and uncomplicated, wouldn't you say? That's the cell's "seed."

As life evolved, it became more and more neccessary to include even more complex information, which was added, bit by bit, to the "seed."

See where I'm going with this? To say, "look how complicated and intricate this information system is" may be to miss the possibility that the complexity itself evolved naturally, as the evolution changed the information and added to it.

It didn't have to start out so complicated. It may even have started as that "holographic" information system that the rock contains...every part is the same as the whole. Look at starfish: Cut one in half, and you get two starfish.

The requirement for more storage, as life became more complicated, may simply have caused life to keep adding information, "building" itself a better system.

What do you think? :D Just speculating here, no idea of the accuracy and validity of any of these thoughts.

PREBE!!! :lol:

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Allright, first of all let me add one more fact to the idea of DNA as an information system that has been floating through this topic. Until a few years ago, it was believed that all of our DNA would codify for proteins - then, it was discovered that actually the greatest part by far of our DNA is silent - it is not translated into proteins, and seemed to have no particular function except sitting there and taking space in the nucleus. Still, well, you have some codifying DNA, so at least the one gene - one protein axiom works, right?

Well... no. It was later discovered that most genes have the capacity to produce more than one protein, by "splicing" the RNA transcripts they produce. So, if you have a gene which codifies for the protein ABCD, chances are that it could also codify for ACD, ABC, BCD, or even just C. A complex - extremely complex series of mechanisms regulates which proteins are produced in any given moment, and in which quantity.

Then it was discovered something even stranger: in some cases, there are genes that can produce more than one protein, and to produce some of these proteins they skip the "STOP" signal and utilize some of the supposedly unused DNA!

And then another discovery - there are pieces of supposedly unused DNA which can "jump" from gene to gene, or even from chromosome to chromosome, detaching from a DNA strand and attaching themselves to another, often causing mutations!

And this only scratches the surface of what is actually going on inside us... So, as you can see, the picture is much more complex than first thought.

Now on to Avatar's post. It is undoubtly true that the first lifeforms were nowhere near as complex as we are. But there are now serious doubts that life began with proteins in the first place. It was discovered several years ago that RNA has the capability to catalyze some reactions by itself - there is no need for enzymes (which are usually proteins) in such cases. And this mechanism seems to be more ancient than the now common enzymatic catalysis mechanism. Indeed, it is believed that the first life forms were RNA-only: at first, it was just as a template for replication, but then slowly this template evolved and became capable of catalyzing other reactions, so it began to protect itself with a primitive membrane (maybe even just a simple bubble of lipids). And then it began producing more of itself, folding in new ways and catalyzing even more reactions, until at some time it became capable of catalyzing a bond between amino acids - thereby producing proteins. At the same time, RNA is more unstable than DNA, so it was not only more at risk of mutations, it was also more at risk of damage - so it converted to DNA, very probably exploiting some of the first primitive proteins as well. And from there, well, there we began to see an explosion of complexity. DNA was more stable, so it could allow itself to be bigger; it could also produce RNA, which would catalyze more primitive proteins; and some of these could help the DNA replicate itself, or even produce more proteins!

And what about energy? Well, it is very likely that the first life forms exploited either of two biological processes that still exist now: a primitive form of photosynthesis, or more likely, anaerobe respiration. Either of them is still a complex mechanism, that relies on specific molecules to split and sequentially change other molecules in order to produce energy in the form of ATP.

So after a while our primitive life forms were floating somewhere, little more than a lipid membrane full of water, amino acids, proteins, ions, and long strands of DNA and RNA. Mutation is still a factor - there aren't likely any means of protecting DNA safely - so the life forms diversify. And sometime later, one of these life forms developed a better way to produce energy. And another, passing by, ate the first one - but didn't digest it, it simply held it within, drawing on the energy it would produce. In time, the first life form would become the progenitor of mitochondria - and this is a process that japanese scientists have reported to be happening now in another micro-organism in Japan!

Keep in mind that all of what I said is a simplification of the processes that it is believed happened back then - but it should still give an idea about how complex was life even back then. And, by the way, the power to produce copies of yourself is not necessarily the only trait that distinguishes life - the ability to evolve is also one.

Also, the genetic code of which Fist spoke arose very early - indeed, if you compare the genetic codes of eukaryotes and prokaryotes (humans and bacteria, for example) you will see that there are just a few differences, but the basics are exactly the same, so even if the amount of information present in the first life forms was not as big as what we carry in our cells, the information system - the "infrastructure", so to speak - came into being very early, and only changed little from its beginnings.
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Post by Avatar »

Fascinating post Xar. I'm a little at a loss as to whether you're supporting Fists feeling, or opposing it though. :)

Essentially, whether you're agreeing that it's too complex a process to have been put in place/initiated simply by evolution, and the random mutation/development of DNA.

I get the feeling, not from anything implicit in your post, just a feeling, that you're hinting that DNA itself is a lifeform of sorts. ;)

Right, so let me see if I have a grasp of the basic principles here, (and forgive the lay-person translation ;) ), The information systems of the first lifeforms were even more primitive than DNA...i.e. RNA, no more than that template for replication...as it became more complicated, (by virtue of evolution/mutation?) it got larger, and became capable of further reactions/processes, thereby requiring some protective mechanism, then became (?) DNA, which could replicate the RNA in a safer environment?

OK, I'm with you so far I think, but then maybe you started going a little fast for me. ;) Some of that stuff I can understand, like the choice between photosynthesis and anerobic respiration, and the complexity of reactions required to produce adenosinetriphosphate for energy.

But I don't see the link between this and what I was suggesting, unless it's that the required chemical/"genetic" complexity was already massive in those primitive forms, in comparison so the supposed relative simplicity that I suggested. (Of course, wouldn't that still be fairly simple in comparison to today?)

In other words, I can't tell if you're positing (through your explanation of development) that it is possible for that information system to have expanded by itself, gradually growing in complexity, or that it must have been designed.

Knowing your personal feeling on the existence of a god, I could assume that you edge toward the design, but, because I'm sure that you agree that a "first cause" or "prime mover" doesn't necessarily imply design, I'm not sure I want to make that assumption. ;)

A pleasure to have you taking part so much more frequently. Look forward to more explanation. :)

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Post by Xar »

Well, Avatar, to be honest I purposefully tried to steer clear of personal judgments and beliefs in that post - in other words, I purposefully tried to steer away from a subjective point of view. In part, at least, that is because I feel that the best thing one can do is to present facts, and then let the other person reach his own conclusions.

Anyway, let's see if I can talk a bit more about the subject...

The interesting observation you raise, about whether DNA is a lifeform by itself, is actually an intriguing bone of contention among a few biologists right now. From a certain point of view, if you think about it, all living beings exist to perpetuate the species - therefore, to perpetuate their DNA. You might even go as far as claim that the human body is an appendage of DNA - a sack full of seawater that DNA uses to go around and propagate itself. "The selfish gene" is a book which explains this point of view. Still, if you accept that DNA is a lifeform by itself, then there is the matter of viruses, who must therefore be considered true lifeforms themselves.

Anyway, that's not the point I was trying to make ;) What I was trying to hint at is that even the most primitive life forms - little more than bubbles of lipids with RNA strands floating inside - were already organized and capable of increasing their complexity; even more, as soon as certain proteins began to be formed, the information infrastructure present in DNA and RNA (the genetic code) suddenly "clicked into place" and became the standard repository of the blueprints for the lifeform's creation. So, complexity existed even in the most primitive lifeforms. And then look at what we have today - the complexity of life in its forms. We - as humans - are borrowing solutions from nature because it was smarter (!) than any of us! If you happen to look for a map of biochemical pathways in a single cell, you would get something that makes your brain spin - and all is interconnected, there are redundants systems so that if one fails, another takes its place, there is a certain amount of plasticity so that systems can compensate if something goes wrong...

And all this does not even tackle one of the physically most important points you could raise: the law of entropy states that entropy (disorder) is always increasing in the universe, and it cannot decrease. You need to expend energy to reduce the disorder of a specific system, and spending that energy increases the universe's overall entropy anyway. All living beings are highly ordered and structured: even the primitive ones had to be, in order to survive. So, in this sense, by all means life shouldn't be here: we go against entropy (and that's why we need energy to continue on living). So how come we're here, wondering about entropy? :P

If you want to know my personal opinion though, Avatar... well, I can't really tell you. It's not something I can easily put into words. But it is reinforced every time I look at a flower and try to think whether something like that could have developed by sheer chance. Or when I look in a baby's eyes, and I try to imagine whether that, too, is simply the product of pure chance. Or the majesty of a great tree, if you prefer, or a myriad other things which always fill my heart with wonder. That is why I believe.
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Post by wayfriend »

Fist and Faith wrote:I'm not sure what you mean, Wayfriend. Is only one bit of genetic information dealt with at any one time?
(People frequently don't know what I mean; in this case, I'm trying to demonstrate in more concrete terms what it means when people say that there's not enough time for so much evolution to occur. No, evolution doesn't happen "one bit at a time", but we'd have to sustain an evolutionary process at blinding speeds for billions of years to explain it, and "1 bit per 4 months" is as good a measure of genetic selection rate as any others I've seen.)
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Post by Prebe »

fist wrote:This is all too much for me. Unless there is reason to believe things happened in a much different way than all that - and, by "reason," I mean evidence - it's just too much for me.
As it is for me Fist; because pre-life evolution is a singularly difficult discipline, and one I have very little knowledge about. But if you can believe my story about the butterfly (my first contribution to the close I believe, in the "What is evolution" thread) it shouldn't be much harder for you to believe in the formation of macromolecules, and the selection of those most suited to the environment. Now, I'm no chemist, so I can't give you a scenario for selection of free molecules. But, progression of evolution was most certainly much, much slower when recombination mechanisms like sex weren't present.

By all means believe if you feel the need, but please don't start "believing" just because you don't "understand". That is the sure way to ignorance, or at least it is not going to increase knowledge.

Good posts by the way Xar. And Avatar says it at least as good as I ever could. As I said, abiogenesis is not my field.

I have heard, however, that the assembly of prebiotic RNA molecules might have been hugely faciliated by clay-like minerals that had molecular grooves with a spacing that was a pretty exact match between units in RNA molecules. Such a template would provide an environment for "experimentation" many orders of magnitude more "fertile" than a puddle. (I'm starting to write like "The" Esmer :)

Wayfriend: Selection has taken place in millions of places simulataneously. Appart from that I like your calculation.
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Post by Fist and Faith »

Oy, I'm on vacation, and I still don't have time to keep up with this thread! :lol: Just took a kid to the doctor. I'll make a more specific post before I go to bed tonight, but for now...
Xar wrote:Well, Avatar, to be honest I purposefully tried to steer clear of personal judgments and beliefs in that post - in other words, I purposefully tried to steer away from a subjective point of view. In part, at least, that is because I feel that the best thing one can do is to present facts, and then let the other person reach his own conclusions.
You did a good job of that, and I appreciate it. I'm looking to get all the info I can, at which point I'm quite able to draw my own conclusions. :D
Prebe wrote:By all means believe if you feel the need, but please don't start "believing" just because you don't "understand". That is the sure way to ignorance, or at least it is not going to increase knowledge.
Indeed! This is exactly the point of this thread. I don't want to base this decision on wrong information, or a lack of the right information. Something I know very little about is strongly suggesting something, so I want to learn more about it. I've seen people dismiss evolution based on versions of it that even I know are horribly ignorant, and I want to do better.

And I'll have to go find your butterfly post.
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Post by Fist and Faith »

Avatar wrote:Interesting topic ineed Fist. I think I'll have a stab at it, without, of course, any more qualification than you have in the topic, and with an idea as clear as yours as to where this is going. ;)
At least you understand me this far. The key word of this thread is Huh?:haha:
Avatar wrote:If I can quickly break down your basic premise here, (the one you're operating from for the purpose of this discussion), you're saying that this information system is so complex and wide-ranging, contains, in essence, so much information, that you can't see how it could be random. Right?
Not exactly. I'm not concerned with how much information the system contains, or how complicated the system is, merely with the fact that an information system exists. Yes, the fact that this system is far beyond anything we can make adds to the feeling, but it's not necessary. In a way, we don't even have to figure out whether or not it's logical to think that an information system could come into existence without a designer. The fact that this is the only information system not designed by humans means that either:
-they don't occur without a designer, and this one was also designed. Or
-in 15 billion years, only one information system has ever come about through natural processes; without a designer.
(Certainly, there could be other information systems in the universe that we don't know exist. But I don't see how we can add that speculation to the conversation.)
Avatar wrote:So let's look at the nature of an information system...what does it do? It stores information, right? Let's not worry about what type of information at this stage. It also allows that information to be retrieved and used, right?
Agreed. It is not merely patterns that are stored; the patterns have meaning. And the information is not merely stored, but is retrievable. (And in the case of RNA/DNA, the information is retrieved and used by the system itself.)

Aside from asking what the heck holographic information in rocks is 8O, I'm going to skip the rest of your post. At least for now. I don't have any difficulty seeing how this information system could have become more powerful/complicated/efficient as time went by.

And thanks! :D

*looks at Xar with a deer-caught-in-the-headlights expression*
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Post by danlo »

Damm Fist! I completely forgot to give you Absolution and the Benny Hinn touch of faith-healing on the forehead when we met at the Palisades Mall this past Summer! :P
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Post by Menolly »

danlo wrote:Damm Fist! I completely forgot to give you Absolution and the Benny Hinn touch of faith-healing on the forehead when we met at the Palisades Mall this past Summer! :P
Hmm...

Is this something a Wiccan-leaning Jewess can do in your place when Fisty and I (hopefully) meet up next week?
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Post by Fist and Faith »

You'd better edit that "hopefully" out of that post, young lady!!! If nothing else, I'll drive to see you. There's a good little restaurant in Warwick that makes a great fried pb&j sandwich, and some other things!
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Post by Fist and Faith »

Xar wrote:Let's talk :P
How about you talk, and I'll go *bbbbbbbbbbbbbbbbbbbbb* with my finger on my lips.

I haven't read much of Genetics for Dummies yet, so I really don't have much of a grasp on DNA, and even less on RNA. From what you're saying, I guess RNA is assumed to be a precursor of DNA?
Xar wrote:And this mechanism seems to be more ancient than the now common enzymatic catalysis mechanism.
What does this mean? "Seems to be"? How can such a thing be determined? Is it at all possible to explain in lay-terms?
Xar wrote:At the same time, RNA is more unstable than DNA, so it was not only more at risk of mutations, it was also more at risk of damage - so it converted to DNA, very probably exploiting some of the first primitive proteins as well. And from there, well, there we began to see an explosion of complexity. DNA was more stable, so it could allow itself to be bigger; it could also produce RNA, which would catalyze more primitive proteins; and some of these could help the DNA replicate itself, or even produce more proteins!
I get lost after the word "bigger." But why wouldn't the relative instability, and therefore greater rate of mutation, of the RNA more readily allow an "explosion of complexity"? Isn't mutation what determines such a thing?
Xar wrote:So after a while our primitive life forms were floating somewhere, little more than a lipid membrane full of water, amino acids, proteins, ions, and long strands of DNA and RNA. Mutation is still a factor - there aren't likely any means of protecting DNA safely - so the life forms diversify. And sometime later, one of these life forms developed a better way to produce energy. And another, passing by, ate the first one - but didn't digest it, it simply held it within, drawing on the energy it would produce. In time, the first life form would become the progenitor of mitochondria
I remember hearing about mitochondrial DNA a few times. A show on PBS or the Discovery Channel, The Real Eve, said (iirc) it is not the same as the DNA of the rest of the organism. What's more, it passes through the maternal line, allowing us to follow genetic lines fairly easily. I guess the mitochondrial and the other DNA are synchronized, so that they both reproduce at the same time? Otherwise, the cell would divide, and only one of the daughter cells would have mitochondria? But maybe that's not a good guess (or, more likely, a complete misunderstanding of the process), because that couldn't have been the case when the one life form ate the one that had better energy production. *head spinning*
Xar wrote:and this is a process that japanese scientists have reported to be happening now in another micro-organism in Japan!
That's cool news to hear about! And it also brings up a point. As the theory goes, when, for example, geographic isolation of a group of members of a species occurs, and the isolated group eventually evolves, the larger group is still around also, and has possibly evolved in a different direction. So there's now two species running around. In a part of your post that I snipped, you said, "Indeed, it is believed that the first life forms were RNA-only: at first, it was just as a template for replication, but then slowly this template evolved..." So then are there still RNA-only life forms running around??
Xar wrote:But there are now serious doubts that life began with proteins in the first place.

.....

Keep in mind that all of what I said is a simplification of the processes that it is believed happened back then -
Kinda frustrating, imo! Difficult to spot RNA fossils! :lol:
Xar wrote:if you compare the genetic codes of eukaryotes and prokaryotes
Oh!! I read about them today!! Eukaryotes have a nucleus, where the DNA is; prokaryotes do not have a nucleus, so the DNA floats in the cell's cytoplasm. Yes? :mrgreen:

XAR IS DA BOMB!! Thanks!
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Post by Menolly »

Fist and Faith wrote:There's a good little restaurant in Warwick that makes a great fried pb&j sandwich, and some other things!
:::ears perking up:::

Really???

Now that truly does sound interesting. I think maybe even Beorn could get into a place like that.

(Now watch, MIL has the same thought and also takes us there at some point)
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Post by Fist and Faith »

heh :D
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Post by Gadget nee Jemcheeta »

This is some interesting stuff, I'm learning more about DNA/RNA than I ever knew before...
But this question is about the origin of life on earth, right?
I've always been kind of frustrated with this question, because if it was shown there was some kind of Creator, I would have all the same questions that I have about myself, except applied to the Creator.
Where did this Creator come from? Who created the Creator?
Except I'm even less important in this situation. MY purpose would have an answer all of a sudden, and an answer that I might not even agree with! If I was created as some kind of...artwork, or experiment or something, I don't really want to be either of those things. I'm actually kind of resentful of the idea of being created for anything at all. Really, I'm more comfortable with the idea of being a random event than a tool.
If we did have some kind of superior creator, that doesn't necessarily imply infinite wisdom or anything.. I mean, we'll probably be able to create new animals and forms of life within the next few years (not that I actually know this) and we sure as heck don't know anything.
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Post by Fist and Faith »

Like I've said a few times here at the Watch, I'm not particularly concerned with what any creator wants from us. I'm going to do what I think is right, regardless. If our purposes are similar, that's fine. But I don't do the worship thing. Any purpose any creator has in mind for me isn't my concern.

You're right that a creator need not be infinite in any way. Even if it is damned smart. If DNA/RNA was designed, it could have been done so by someone who found the universe sitting there, figured out what its laws allowed, and designed DNA.
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Post by Prebe »

fist wrote:I guess the mitochondrial and the other DNA are synchronized, so that they both reproduce at the same time? Otherwise, the cell would divide, and only one of the daughter cells would have mitochondria?
Actually the mitochondria divide indepenedently of the cell they are in. Immagine they are a sort of bacteria living inside the cell. When the cell divides the mitochondria inside (often numbered in the hundreds) are distributed more or less randomly between the two new cells.

The mithochondrion even have its own DNA replication system and protein synthesis system. However, it could not exist on its own, because during the cause of evolution genes and gene products form the "Mother" cell have replaced original bacterial functions.
fist wrote:So then are there still RNA-only life forms running around??
No, but there are viruses that have all their code contained in RNA (retroviruses like HIV is a good example). However, this adaptation is likely to be apomorphic (advanced) meaning that the retrovira are not descendants of ancient RNA-based lifeforms, but have arisen from DNA based vira/organisms.
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