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Author Topic:   Some mutations sound too good to be true
Faith 
Suspended Member (Idle past 1474 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 286 of 301 (247187)
09-29-2005 4:17 AM
Reply to: Message 283 by crashfrog
09-28-2005 8:45 PM


Re: Mutation in bacteria again
For instance, sequences of the same base repeated several times - i.e. "TTTTTT" - are more likely to experience certain types of mutation than nonrepetitive sequences. This is again, not evidence of certain mutations being programmed, but a natural consequence of the way DNA replication works.
But anything that can be described as a "natural consequence" is in the ballpark of something that is "programmed." That is, the chemical substitutions occur in obedience to laws. Yes, I understand the randomness factor.
You're not going to understand how mutations occur if you don't understand the structure of DNA and the process of DNA replication.
I have read quite a bit about the structure of DNA, but it's not the sort of thing that is easily grasped with all its various processes even on many readings, so the more repetition the better, and when it is repeated by somebody on a thread like this, often it is explained from a new angle, which helps get the idea across better.

This message is a reply to:
 Message 283 by crashfrog, posted 09-28-2005 8:45 PM crashfrog has not replied

Replies to this message:
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Graculus
Inactive Member


Message 287 of 301 (247222)
09-29-2005 9:16 AM
Reply to: Message 285 by Faith
09-29-2005 4:09 AM


Re: Mutation in bacteria again
Is it too complicated to say how a number of samples can show this?
Not complicated. One sample = one individual's genetic history. While a single sample can tell you a little, the more samples you have the closer you are to looking at the entire population's history, and the more you can tell about the population, rather than the individual.
Certainly, but you have to have reliably observed mutation (heard trees falling) of a kind and at a rate, to support the idea of evolution in order to make a reliable extrapolation from it,
Of course. And we have observed mutation and rates of mutation. We also know from the historical and fossil record where certain populations divered, so we have a longer view on rates.
and extrapolating to the past where all kinds of things might have been different (unlike unwitnessed trees falling in unwitnessed forests which only have to obey the laws of physics) adds another dimension of possible error.
Which is why there are large margins on the results, and why the loci used for this analysis are neutral loci. Again, it comes down to assuming that thousands of scientists have managed to not notice these issues. They have noticed.
What I assumed is that the principle of uniformitarianism governs many scientific estimates of time, especially in the absence of positive corroborating factors. Now you are saying that there are other indicators of a (relatively?) constant rate of mutation to be found in the junk DNA?
"Junk" DNA (neutral DNA) is subject to less variables, namely, selection. Of all of the DNA available to look at, it is the least likely to be influenced by other factors.
On one level molecular clocks are easy. You can look at a group of populations and tell when they diverged relative to one another without too much sweat. Where things get complicated is putting a "years ago" on these divergences. It requires a great deal of research (observation) to come up with that.

This message is a reply to:
 Message 285 by Faith, posted 09-29-2005 4:09 AM Faith has replied

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 Message 288 by Faith, posted 09-29-2005 1:04 PM Graculus has not replied

Faith 
Suspended Member (Idle past 1474 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 288 of 301 (247306)
09-29-2005 1:04 PM
Reply to: Message 287 by Graculus
09-29-2005 9:16 AM


Re: Mutation in bacteria again
Is it too complicated to say how a number of samples can show this?
Not complicated. One sample = one individual's genetic history. While a single sample can tell you a little, the more samples you have the closer you are to looking at the entire population's history, and the more you can tell about the population, rather than the individual.
Well, but all you are doing here is asserting that it is so, not telling what exactly you are looking at in the samples.
Certainly, but you have to have reliably observed mutation (heard trees falling) of a kind and at a rate, to support the idea of evolution in order to make a reliable extrapolation from it,
Of course. And we have observed mutation and rates of mutation. We also know from the historical and fossil record where certain populations divered, so we have a longer view on rates.
I guess I risk offending scientists again if I say that the idea you can read time in the fossil record is merely an interpretation.
and extrapolating to the past where all kinds of things might have been different (unlike unwitnessed trees falling in unwitnessed forests which only have to obey the laws of physics) adds another dimension of possible error.
Which is why there are large margins on the results, and why the loci used for this analysis are neutral loci. Again, it comes down to assuming that thousands of scientists have managed to not notice these issues. They have noticed.
No doubt, but the principle of uniformitarianism and the idea that the fossil record shows evolution over time are open to question.
What I assumed is that the principle of uniformitarianism governs many scientific estimates of time, especially in the absence of positive corroborating factors. Now you are saying that there are other indicators of a (relatively?) constant rate of mutation to be found in the junk DNA?
"Junk" DNA (neutral DNA) is subject to less variables, namely, selection. Of all of the DNA available to look at, it is the least likely to be influenced by other factors.
On one level molecular clocks are easy. You can look at a group of populations and tell when they diverged relative to one another without too much sweat. Where things get complicated is putting a "years ago" on these divergences. It requires a great deal of research (observation) to come up with that.
I really am not following you here, but this thread is nearly over anyway, and maybe somebody else will make it clearer.

This message is a reply to:
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Replies to this message:
 Message 289 by NosyNed, posted 09-29-2005 1:30 PM Faith has replied
 Message 291 by Ben!, posted 09-29-2005 6:24 PM Faith has not replied
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 Message 294 by crashfrog, posted 09-29-2005 6:54 PM Faith has replied

NosyNed
Member
Posts: 9004
From: Canada
Joined: 04-04-2003


Message 289 of 301 (247313)
09-29-2005 1:30 PM
Reply to: Message 288 by Faith
09-29-2005 1:04 PM


dates and dating
I guess I risk offending scientists again if I say that the idea you can read time in the fossil record is merely an interpretation.
In fact all you do is show that you don't know anything about that topic either.
The "Dates and Dating" forum here is very quiet because YEC'ers are unable to find any answers on the web that stand up to any scrutiny and they give up almost immediately.
The "time" in the fossil record is read off very well supported physical facts of radioactive decay.

This message is a reply to:
 Message 288 by Faith, posted 09-29-2005 1:04 PM Faith has replied

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Faith 
Suspended Member (Idle past 1474 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 290 of 301 (247369)
09-29-2005 5:24 PM
Reply to: Message 289 by NosyNed
09-29-2005 1:30 PM


Re: dates and dating
OK, how about letting me start a thread on the subject with the same intention as this one, in which I only ask questions about how the strata and the fossils are dated?

This message is a reply to:
 Message 289 by NosyNed, posted 09-29-2005 1:30 PM NosyNed has not replied

Replies to this message:
 Message 292 by AdminBen, posted 09-29-2005 6:29 PM Faith has replied

Ben!
Member (Idle past 1428 days)
Posts: 1161
From: Hayward, CA
Joined: 10-14-2004


Message 291 of 301 (247380)
09-29-2005 6:24 PM
Reply to: Message 288 by Faith
09-29-2005 1:04 PM


Re: Mutation in bacteria again
Hi Faith,
I guess I risk offending scientists again if I say that the idea you can read time in the fossil record is merely an interpretation.
It's more like a consistent theory. Either you have data to knock it down, or you have "wild" (read: heretofore unfounded via any empirical theory) speculation that you can come up with another consistent theory.
"Merely an interpretation" is not insulting; it's wrong. There are (as far as I can see) no competing theories. "Theory" doesn't mean "hypothesis that has not been tested with data." "Theory" means "conistent with the data and other empirical theories."
As I said in the beginning, it's not OK to call science "interpretation" until you actually have another theory that allows other "interpretations." Otherwise, it's scientifically dishonest to say this.
No doubt, but the principle of uniformitarianism and the idea that the fossil record shows evolution over time are open to question.
If they're open to empirical question, then maybe you'd like to suggest being allowed to participate in What is the basis for holding that Uniformitarianism is valid?? This discussion seems to have gone reasonably well; I'm sure there's at least some basis for requesting access to asking questions in other threads.
But remember, without actually SHOWING that the fossil record and evolution over time are "open to question", you're making an unsupported assertion. That's not science.
By the way, I'm posting in "regular" mode because these thoughts are on the borderline between admin and regular thought. So... to be on the safe side, and to discuss if you want.
Somehow I'm ending up feeling like Jimmney Cricket.
Ben

This message is a reply to:
 Message 288 by Faith, posted 09-29-2005 1:04 PM Faith has not replied

AdminBen
Inactive Member


Message 292 of 301 (247383)
09-29-2005 6:29 PM
Reply to: Message 290 by Faith
09-29-2005 5:24 PM


Re: dates and dating
OK, how about letting me start a thread on the subject with the same intention as this one, in which I only ask questions about how the strata and the fossils are dated?
I think that's worth considering; I can bring it up with the other admins. Feel free to post a PNT about it.
I would, however, ask you to consider taking some time after finishing this thread to review a lot of what's gone on here. There was a LOT of information, and I'm not getting a clear picture of a conclusion. It's important to really either close the issue and accept the view here, to have some questions to continue with, or to come up with some solid objections that have not been answered here.
I'm struggling to keep up, so this is just general advice. I'm certainly not trying to say I know your level of knowledge or understanding of the subject, or your intent. Just to repeat the same things I've been trying to say since the beggining of this thread, as we're winding to a close.
Thanks.
P.S. Sorry for using up 2 precious posts in the last 5 mins

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This message is a reply to:
 Message 290 by Faith, posted 09-29-2005 5:24 PM Faith has replied

Replies to this message:
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coffee_addict
Member (Idle past 506 days)
Posts: 3645
From: Indianapolis, IN
Joined: 03-29-2004


Message 293 of 301 (247389)
09-29-2005 6:53 PM
Reply to: Message 288 by Faith
09-29-2005 1:04 PM


Earth's Age
EvC Forum: Age Correlations and an Old Earth: Part II.
I highly recommend you read that very thought out and extremely montrously long OP by RAZD about the age of the Earth and how we arrived at the conclusions.

My favorite quotes of the week.
I'd sooner let John Couey, C-O-U-E-Y, who raped and buried alive little Jessica, I'd sooner let him adopt kids, than turn them over to the fags and dykes! That clear enough for ya? --Fred Phelps
Yeah, I used to question but I strive to be wise, a questioning philosopher isn't wise, a hard laborer that perhaps lacks education and only has a few simplistic beliefs but does not question those beliefs is wise. -- Guess who

This message is a reply to:
 Message 288 by Faith, posted 09-29-2005 1:04 PM Faith has not replied

crashfrog
Member (Idle past 1496 days)
Posts: 19762
From: Silver Spring, MD
Joined: 03-20-2003


Message 294 of 301 (247390)
09-29-2005 6:54 PM
Reply to: Message 288 by Faith
09-29-2005 1:04 PM


Re: Mutation in bacteria again
Well, but all you are doing here is asserting that it is so, not telling what exactly you are looking at in the samples.
I'll try to tell you, because my wife does this exact thing in the lab. It's called "molecular phylogenetics."
It's complicated, but essentially you examine the same gene across several closely related species. With the proper tools, you're able to get an idea of what mutations at that gene each species does or does not share with each other species. Then a tree can be constructed. It's like a logic problem - you know that, for instance, if A shares a given mutation with B but not with C, and B has a mutation that neither A nor C have, that B decended from A, and A decended from C. Now it's rarely this simple, of course, and so when there's multiple trees that can be constructed based on the information in one gene, you can repeat the process for the same individuals on a different gene. When you have the same resulting tree from multiple genes, you've correctly inferred the phylogeny - the family tree - of those species.
It's going to take someone much smarter than I to make this any simpler, and I'm probably still over your head. The basic idea to take away from this is that you can determine which individuals decended from which other ones based on the mutations that they do, or do not, share. It's about comparing the genetic information, specifically information that two species would share only if they shared some degree of descent.

This message is a reply to:
 Message 288 by Faith, posted 09-29-2005 1:04 PM Faith has replied

Replies to this message:
 Message 296 by Faith, posted 09-29-2005 7:36 PM crashfrog has replied

Faith 
Suspended Member (Idle past 1474 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 295 of 301 (247414)
09-29-2005 7:34 PM
Reply to: Message 292 by AdminBen
09-29-2005 6:29 PM


Re: dates and dating
I suppose the last few posts for this thread will fill up very fast so this will probably be my last. I will take your advice and ponder this thread before opening a new one. That seems like good counsel as there was a lot of information packed onto this thread that bears more thought.

This message is a reply to:
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Faith 
Suspended Member (Idle past 1474 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 296 of 301 (247415)
09-29-2005 7:36 PM
Reply to: Message 294 by crashfrog
09-29-2005 6:54 PM


Re: Mutation in bacteria again
I get the picture. Which closely-related species have been studied in this way, or in particular which has your wife studied?
This message has been edited by Faith, 09-29-2005 07:36 PM

This message is a reply to:
 Message 294 by crashfrog, posted 09-29-2005 6:54 PM crashfrog has replied

Replies to this message:
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crashfrog
Member (Idle past 1496 days)
Posts: 19762
From: Silver Spring, MD
Joined: 03-20-2003


Message 297 of 301 (247424)
09-29-2005 7:49 PM
Reply to: Message 296 by Faith
09-29-2005 7:36 PM


Re: Mutation in bacteria again
Which closely-related species have been studied in this way
Take your pick. The sort of genetic analysis required - which is the exact same procedure as a paternity test - has gone, in a decade, from something only the nation's top bio labs and leading biochemists were capable of to something that a barely-trained lab tech, or a grad student's husband like myself, can do with a $4,000 PCR machine and a micropipettor.
There's been an explosion of papers describing the molecular phylogenetics of literally any group of organisms you choose. Most of the time we wind up confirming the phylogeny that was already inferred from morphology - comparing physical characteristics - but every now and then we find a few surprises - things that lead us to redraw the family tree slightly.
in particular which has your wife studied?
You'll pardon me for being vague, but I'm not comfortable divulging details of my wife's in-progress graduate research. Biology, especially that related to agriculture, can be a very competitive field. (And you would probably find it pretty boring.) Suffice to say that she's working the tables on a family of insects that are common agricultural pests throughout most of the Midwest, and are very difficult to identify as larva, which is when they are most damaging. (I may have given it away to the entomologists in the house.)

This message is a reply to:
 Message 296 by Faith, posted 09-29-2005 7:36 PM Faith has not replied

Wounded King
Member
Posts: 4149
From: Cincinnati, Ohio, USA
Joined: 04-09-2003


Message 298 of 301 (252324)
10-17-2005 2:43 AM
Reply to: Message 296 by Faith
09-29-2005 7:36 PM


Re: Mutation in bacteria again
If you are interested in molecular phylogenetics you might like to look at the 'Sequence comparisons (Bioinformatics)' thread which discusses some basic approaches to making phylogenetic trees from protein or DNA sequence data.
TTFN,
WK

This message is a reply to:
 Message 296 by Faith, posted 09-29-2005 7:36 PM Faith has not replied

today9823 
Inactive Member


Message 299 of 301 (252391)
10-17-2005 12:26 PM


Power of Creation proves Creation over Evolution
Think rationally and I'll teach you why Creation is our origin rather then evolution! But before I go on I'm telling you to receive my words in Jesus name and take this as a warning... one because you failed to believe in whom the Father sent!
We all have the power to create in ourselves... take a drawing, we create this drawing in our minds and then express our creation with tools like pencils! So then everyone has this wonderful creative power inside them so search inside yourself for your own creative power while I continue...
Now for some revelation! With this creative power we can create something within our minds although we cannot create something that is of a higher creative order then we have! It's like having a cup of water filled to the brim... it cannot hold more water! That is the secret of creation... that we cannot create at a higher creative power! This proves (if you searched yourself and are honest) that our source is top down rather then bottom up and the key to this understanding is creation power!
Love Richard

today9823 
Inactive Member


Message 300 of 301 (252392)
10-17-2005 12:27 PM
Reply to: Message 286 by Faith
09-29-2005 4:17 AM


Creation
Think rationally and I'll teach you why Creation is our origin rather then evolution! But before I go on I'm telling you to receive my words in Jesus name and take this as a warning... one because you failed to believe in whom the Father sent!
We all have the power to create in ourselves... take a drawing, we create this drawing in our minds and then express our creation with tools like pencils! So then everyone has this wonderful creative power inside them so search inside yourself for your own creative power while I continue...
Now for some revelation! With this creative power we can create something within our minds although we cannot create something that is of a higher creative order then we have! It's like having a cup of water filled to the brim... it cannot hold more water! That is the secret of creation... that we cannot create at a higher creative power! This proves (if you searched yourself and are honest) that our source is top down rather then bottom up and the key to this understanding is creation power!
Love Richard

This message is a reply to:
 Message 286 by Faith, posted 09-29-2005 4:17 AM Faith has not replied

Replies to this message:
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