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Author Topic:   How novel features evolve #2
Tangle
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Posts: 9504
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Message 121 of 402 (665608)
06-15-2012 7:37 AM


Found this whilst reading around the Ames test. QI.

Life, don't talk to me about life - Marvin the Paranoid Android

  
Tangle
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Posts: 9504
From: UK
Joined: 10-07-2011
Member Rating: 4.7


Message 122 of 402 (665610)
06-15-2012 7:47 AM
Reply to: Message 120 by Dr Adequate
06-15-2012 5:09 AM


Dr A writes:
As a first instance, let me direct you to the Ames Test. The initial state is known, the final state is known, and the mutation keeps the bacterium from dying of malnutrition.
I'd have a couple of complaints if I was a creationist.
1) It's artificial - it starts with a deliberately faulty lab-bred bug.
2) The mutation that occurs (if it occurs) simply takes it back to the bugs normal functioning (ie the way god intended) - not a new trait.
3) You haven't isolated the actual mutation and proved that it is genuinely new. I think it was there all the time and occasionally gets switched on when the bugs are starving.

Life, don't talk to me about life - Marvin the Paranoid Android

This message is a reply to:
 Message 120 by Dr Adequate, posted 06-15-2012 5:09 AM Dr Adequate has replied

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Dr Adequate
Member (Idle past 305 days)
Posts: 16113
Joined: 07-20-2006


Message 123 of 402 (665612)
06-15-2012 8:09 AM
Reply to: Message 122 by Tangle
06-15-2012 7:47 AM


I'd have a couple of complaints if I was a creationist.
Also, you'd be wrong.
1) It's artificial - it starts with a deliberately faulty lab-bred bug.
2) The mutation that occurs (if it occurs) simply takes it back to the bugs normal functioning (ie the way god intended) - not a new trait.
What of it? It fulfills the criteria, it's a beneficial mutation being fixed in the population. If you want an example of something else, you should ask for it. Lenski's experiments come to mind.
3) You haven't isolated the actual mutation and proved that it is genuinely new. I think it was there all the time ...
Haven't you read the article? We do know exactly what is happening to the genome. The his operon is broken in the initial population.
and occasionally gets switched on when the bugs are starving.
Would you care to explain why this is more likely to happen in the presence of mutagens?

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 Message 122 by Tangle, posted 06-15-2012 7:47 AM Tangle has replied

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 Message 124 by Tangle, posted 06-15-2012 4:30 PM Dr Adequate has replied

  
Tangle
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Posts: 9504
From: UK
Joined: 10-07-2011
Member Rating: 4.7


Message 124 of 402 (665682)
06-15-2012 4:30 PM
Reply to: Message 123 by Dr Adequate
06-15-2012 8:09 AM


I love Lanski's stuff - it's real, proper, rigorous, long term science. But not being a micro-biologist I've always taken it at face value, never tried to see it as a creationist would. No doubt they have severe objections.
This was the question in the OP.
"I accept that natural selection does occur and that it can cause a population to change, but you need now to show me how the genome created those novel features because, until you do, I can say that the genome must have had them to start with."
Does Lenski's stuff do that?

Life, don't talk to me about life - Marvin the Paranoid Android

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 Message 123 by Dr Adequate, posted 06-15-2012 8:09 AM Dr Adequate has replied

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 Message 125 by Dr Adequate, posted 06-15-2012 4:57 PM Tangle has replied

  
Dr Adequate
Member (Idle past 305 days)
Posts: 16113
Joined: 07-20-2006


Message 125 of 402 (665686)
06-15-2012 4:57 PM
Reply to: Message 124 by Tangle
06-15-2012 4:30 PM


Yes. Lenski's experiments use a clonal line --- anything that was already in the population would have been fixed in the population from day 1.

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 Message 124 by Tangle, posted 06-15-2012 4:30 PM Tangle has replied

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Tangle
Member
Posts: 9504
From: UK
Joined: 10-07-2011
Member Rating: 4.7


Message 126 of 402 (665694)
06-15-2012 6:15 PM
Reply to: Message 125 by Dr Adequate
06-15-2012 4:57 PM


PZ Myers has blogged on Lemski's responses to creationist criticism of his work. It's a fun read.
Lenski gives Conservapdia a lesson | ScienceBlogs

Life, don't talk to me about life - Marvin the Paranoid Android

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zi ko
Member (Idle past 3641 days)
Posts: 578
Joined: 01-18-2011


Message 127 of 402 (671315)
08-24-2012 10:38 AM
Reply to: Message 4 by RAZD
05-23-2012 10:44 AM


Re: DNA sequences and Phenotype selection
...I would suggest that the cause (random or designed) of a mutation...
Why do you ignore the third (and more propable after epigenetics and the recent immence flow of knowledge about RNA) possibility, that of information from environment causing guided mutations?
Edited by zi ko, : No reason given.

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New Cat's Eye
Inactive Member


Message 128 of 402 (671327)
08-24-2012 11:30 AM
Reply to: Message 127 by zi ko
08-24-2012 10:38 AM


Re: DNA sequences and Phenotype selection
Why do you ignore the third (and more propable after epigenetics and the recent immence flow of knowledge about RNA) possibility, that of information from environment causing guided mutations?
The evnironment doesn't reach the genome in order to mutate it.

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Taq
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Posts: 10038
Joined: 03-06-2009
Member Rating: 5.3


Message 129 of 402 (671331)
08-24-2012 11:46 AM
Reply to: Message 127 by zi ko
08-24-2012 10:38 AM


Re: DNA sequences and Phenotype selection
Why do you ignore the third (and more propable after epigenetics and the recent immence flow of knowledge about RNA) possibility, that of information from environment causing guided mutations?
We ignore it because the evidence doesn't support it.

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Replies to this message:
 Message 131 by zi ko, posted 08-25-2012 1:40 AM Taq has replied
 Message 156 by foreveryoung, posted 09-04-2012 10:44 AM Taq has replied

  
zi ko
Member (Idle past 3641 days)
Posts: 578
Joined: 01-18-2011


Message 130 of 402 (671436)
08-25-2012 12:55 AM
Reply to: Message 128 by New Cat's Eye
08-24-2012 11:30 AM


Re: DNA sequences and Phenotype selection
The evnironment doesn't reach the genome in order to mutate it.
-------------------------------------------------------------------------------You seem so sure.... Can you bring any evidenc for random mutations in metazoa?


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 Message 128 by New Cat's Eye, posted 08-24-2012 11:30 AM New Cat's Eye has replied

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zi ko
Member (Idle past 3641 days)
Posts: 578
Joined: 01-18-2011


Message 131 of 402 (671439)
08-25-2012 1:40 AM
Reply to: Message 129 by Taq
08-24-2012 11:46 AM


Re: Is there any evidence of random mutation?
We ignore it because the evidence doesn't support it.
So what is the evidence supporting creationism or, most importanly, random mutations in metazoa?
On another thread on the same question you gave me this.
I quote:
Abstract
"I estimate per nucleotide rates of spontaneous mutations of different kinds in humans directly from the data on per locus mutation rates and on sequences of de novo nonsense nucleotide substitutions, deletions, insertions, and complex events at eight loci causing autosomal dominant diseases and 12 loci causing X-linked diseases. The results are in good agreement with indirect estimates, obtained by comparison of orthologous human and chimpanzee pseudogenes. The average direct estimate of the combined rate of all mutations is 1.8x10(-8) per nucleotide per generation, and the coefficient of variation of this rate across the 20 loci is 0.53. Single nucleotide substitutions are approximately 25 times more common than all other mutations, deletions are approximately three times more common than insertions, complex mutations are very rare, and CpG context increases substitution rates by an order of magnitude. There is only a moderate tendency for loci with high per locus mutation rates to also have higher per nucleotide substitution rates, and per nucleotide rates of deletions and insertions are statistically independent on the per locus mutation rate. Rates of different kinds of mutations are strongly correlated across loci. Mutational hot spots with per nucleotide rates above 5x10(-7) make only a minor contribution to human mutation. In the next decade, direct measurements will produce a rather precise, quantitative description of human spontaneous mutation at the DNA level."
Direct estimates of human per nucleotide mutation rates at 20 loci causing Mendelian diseases - PubMed
------------------------------------------------------------------------------and my answer was:
I Quote:
"So this famed evidence about random mutations in metazoa ends up to an indirect estimation by a scientist, who in 2002, hopes that other scientists, during next decade (which already had ended), would rather make a direct measurement, evidently necessary for any conclusion!!!!"
Have you since foumd a better evidence tha this?
Edited by zi ko, : No reason given.


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 Message 129 by Taq, posted 08-24-2012 11:46 AM Taq has replied

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 Message 133 by Taq, posted 08-27-2012 1:49 PM zi ko has replied

  
New Cat's Eye
Inactive Member


Message 132 of 402 (671549)
08-27-2012 10:20 AM
Reply to: Message 130 by zi ko
08-25-2012 12:55 AM


Re: DNA sequences and Phenotype selection
The evnironment doesn't reach the genome in order to mutate it.
You seem so sure.... Can you bring any evidenc for random mutations in metazoa?
DNA replication is imperfect and leads to random errors in the gemone that are referred to as mutations. Here's a paper that goes into great detail about it:
http://www.nature.com/...lication-and-causes-of-mutation-409
But that's beside the point that the photype acts as a barrier between the envoronment and the genome, and thus prevents the evironment from directly mutating the genome. Granted, you could nuke your balls in the microwave, or something like that, but I don't think that's what we're talking about.

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Taq
Member
Posts: 10038
Joined: 03-06-2009
Member Rating: 5.3


Message 133 of 402 (671557)
08-27-2012 1:49 PM
Reply to: Message 131 by zi ko
08-25-2012 1:40 AM


Re: Is there any evidence of random mutation?
and my answer was:
I Quote:
"So this famed evidence about random mutations in metazoa ends up to an indirect estimation by a scientist, who in 2002, hopes that other scientists, during next decade (which already had ended), would rather make a direct measurement, evidently necessary for any conclusion!!!!"
Have you since foumd a better evidence tha this?
That evidence still stands. The author arived at an estimate for a mutation rate by measuring the appearance of genetic diseases such as achondroplasia. These are dominant genetic diseases meaning that you only need one copy of the disease allele in order to express the disease phenotype. So when a child is born with one of these diseases while the parents do not have the disease this indicates that the change is due to a mutation.
So why would cells guide the process of mutation to produce these diseases? Or are mutations random, producing a wide range of effects?
I can also cite the Luria-Delbruck fluctuation experiment, the Lederberg plate replica experiment, as well as direct studies of polymerases all of which demonstrate random mutation. I have gone through these experiments with you in the past, and you still ignore them. The evidence hasn't gone away. The evidence clearly demonstrates random mutation with respect to fitness.

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 Message 131 by zi ko, posted 08-25-2012 1:40 AM zi ko has replied

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 Message 134 by zi ko, posted 08-28-2012 12:32 PM Taq has replied

  
zi ko
Member (Idle past 3641 days)
Posts: 578
Joined: 01-18-2011


Message 134 of 402 (671611)
08-28-2012 12:32 PM
Reply to: Message 133 by Taq
08-27-2012 1:49 PM


Re: Meaningless controvercy.
So why would cells guide the process of mutation to produce these diseases? Or are mutations random, producing a wide range of effects?
Guided mutations does not mean strictly determined mutations. In the theory of environment-genes interrelation, there is always place for relative randomness in mutations.
It seems the gap between the evollution theories is closing rapidly. It had proved beyond any doupt that stress causes genes mutations.So the mechanism for it exists in metazoa. Randomness and environmental information are useful to natural life, so are used equally well by nature, most propably radomness more often in monocells, while in metazoa, where neural system is developed guidance is more propable.


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 Message 133 by Taq, posted 08-27-2012 1:49 PM Taq has replied

Replies to this message:
 Message 135 by Taq, posted 08-28-2012 12:42 PM zi ko has replied
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Taq
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Posts: 10038
Joined: 03-06-2009
Member Rating: 5.3


(1)
Message 135 of 402 (671614)
08-28-2012 12:42 PM
Reply to: Message 134 by zi ko
08-28-2012 12:32 PM


Re: Meaningless controvercy.
Guided mutations does not mean strictly determined mutations.
What it means is that you have an ad hoc explanation for guided mutations. The same process produces beneficial, neutral, and detrimental mutations and there is no way to predict which type of mutation it will produce next. They are OBSERVED to be random with respect to fitness.
It seems the gap between the evollution theories is closing rapidly. It had proved beyond any doupt that stress causes genes mutations.So the mechanism for it exists in metazoa. Randomness and environmental information are useful to natural life, so are used equally well by nature, most propably radomness more often in monocells, while in metazoa, where neural system is developed guidance is more propable.
I see a lot of vague claims but zero evidence.

This message is a reply to:
 Message 134 by zi ko, posted 08-28-2012 12:32 PM zi ko has replied

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