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Author Topic:   Evolution Requires Reduction in Genetic Diversity
herebedragons
Member (Idle past 880 days)
Posts: 1517
From: Michigan
Joined: 11-22-2009


(1)
Message 871 of 1034 (759482)
06-11-2015 11:20 PM
Reply to: Message 833 by Faith
06-11-2015 3:51 AM


Re: Evidence of adaptation (but mutation?}
I know you'll think I'm just being difficult for no good reason, but really I'm not. Even though you haven't used any highly technical language it's still too technical for me to follow easily, there's too much detail and I really wish you would just boil it down to simple English.
Two populations. One adapted for cold, one adapted for warm. The researchers found a gene involved in cold tolerance and sequenced it. The population in the warm climate had an allele that produced a non-functional protein and the plant was not cold tolerant. Here is a partial sequence showing the region of the deletion.
OF COURSE THERE ARE ADAPTATIONS. Darwin's finches' beaks are certainly adapted to their chosen food sources, the large-headed lizard is certainly adapted to its food source. The question is how these adaptations came about. The usual idea is that the creature changed to adapt to the environment or in this case food source, but I suspect the creature evolved its characteristic first, due to simple change in allele frequencies brought about by a population split, and then found the food that suited its characteristic best.
Yea, so you think a gene that produces a truncated, non-functional protein was part of the original creation? And it is just now being expressed by a change in allele frequency? Plus there is not a population split involved in this case - the species' range is continuous between Italy and Sweden.
The specifics of how and why are really not addressed by these papers, but the Swedish allele is probably ancestral and the ancestral range was not so far south. The mutation allowed the population to expand its range further south.
One thing I didn't address in my previous post (because I thought it might be too much detail) is that there are adaptive tradoffs involved with cold resistance. So if the plant has the cold resistant allele, it doesn't do well in a climate where it doesn't need it.
I can't tell from your example if this possibility has been addressed.
Read the papers that present the data and make your own judgement.
HBD

Whoever calls me ignorant shares my own opinion. Sorrowfully and tacitly I recognize my ignorance, when I consider how much I lack of what my mind in its craving for knowledge is sighing for... I console myself with the consideration that this belongs to our common nature. - Francesco Petrarca
"Nothing is easier than to persuade people who want to be persuaded and already believe." - another Petrarca gem.
Ignorance is a most formidable opponent rivaled only by arrogance; but when the two join forces, one is all but invincible.

This message is a reply to:
 Message 833 by Faith, posted 06-11-2015 3:51 AM Faith has replied

Replies to this message:
 Message 874 by Faith, posted 06-11-2015 11:37 PM herebedragons has replied

  
herebedragons
Member (Idle past 880 days)
Posts: 1517
From: Michigan
Joined: 11-22-2009


Message 872 of 1034 (759483)
06-11-2015 11:25 PM
Reply to: Message 860 by Faith
06-11-2015 12:01 PM


Re: Evidence of adaptation (but mutation?}
In this case it must be natural selection, different versions showing up and the adapted one surviving,
Where did the non-functional allele come from in the first place?
but nothing was said to prove it was a mutation.
Here is the sequence alignment.
HBD

Whoever calls me ignorant shares my own opinion. Sorrowfully and tacitly I recognize my ignorance, when I consider how much I lack of what my mind in its craving for knowledge is sighing for... I console myself with the consideration that this belongs to our common nature. - Francesco Petrarca
"Nothing is easier than to persuade people who want to be persuaded and already believe." - another Petrarca gem.
Ignorance is a most formidable opponent rivaled only by arrogance; but when the two join forces, one is all but invincible.

This message is a reply to:
 Message 860 by Faith, posted 06-11-2015 12:01 PM Faith has not replied

  
herebedragons
Member (Idle past 880 days)
Posts: 1517
From: Michigan
Joined: 11-22-2009


Message 873 of 1034 (759484)
06-11-2015 11:35 PM
Reply to: Message 837 by Faith
06-11-2015 4:15 AM


Is genetic diversity too complex a topic?
Percy already addressed this, but yea, I didn't just declare it I demonstrated it. I could give you dozens of examples like that; genetic diversity is very, well... diverse.
Whats more... you failed to respond to my direct question, again!
HBD writes:
Heterozygosity is a measure we use to estimate diversity, to have an idea how much variability there is within a population, but it is not synonymous with genetic diversity. Neither is alleles per locus. Think about it, we could have a population with 2 alleles at a given locus with each allele at a frequency of 0.50 which would mean the heterozygosity is 50%. Then we could have another population with 3 alleles that is highly inbreed where heterozygosity is <10%. Which one has higher genetic diversity? What is the value of genetic diversity (and units) for each population? What numerical value for genetic diversity would be considered low or high?
You are claiming heterozygosity and number of alleles per locus are synonymous with genetic diversity, so which population described above is the most genetically diverse according to your measures?
So what is it? How would you rate genetic diversity in this case?
Anyone else have an idea?
HBD

Whoever calls me ignorant shares my own opinion. Sorrowfully and tacitly I recognize my ignorance, when I consider how much I lack of what my mind in its craving for knowledge is sighing for... I console myself with the consideration that this belongs to our common nature. - Francesco Petrarca
"Nothing is easier than to persuade people who want to be persuaded and already believe." - another Petrarca gem.
Ignorance is a most formidable opponent rivaled only by arrogance; but when the two join forces, one is all but invincible.

This message is a reply to:
 Message 837 by Faith, posted 06-11-2015 4:15 AM Faith has replied

Replies to this message:
 Message 875 by Faith, posted 06-11-2015 11:39 PM herebedragons has replied

  
Faith 
Suspended Member (Idle past 1466 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 874 of 1034 (759485)
06-11-2015 11:37 PM
Reply to: Message 871 by herebedragons
06-11-2015 11:20 PM


Re: Evidence of adaptation (but mutation?}
Sorry to be a pain but since I often guess wrong about your posts, would you just say briefly why you are posting this information and what you think it proves in relation to the topic?
Thanks.

This message is a reply to:
 Message 871 by herebedragons, posted 06-11-2015 11:20 PM herebedragons has replied

Replies to this message:
 Message 876 by herebedragons, posted 06-11-2015 11:47 PM Faith has not replied
 Message 880 by Admin, posted 06-12-2015 8:37 AM Faith has not replied

  
Faith 
Suspended Member (Idle past 1466 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 875 of 1034 (759486)
06-11-2015 11:39 PM
Reply to: Message 873 by herebedragons
06-11-2015 11:35 PM


Re: Is genetic diversity too complex a topic?
I don't get why you want me to "rate genetic diversity"

This message is a reply to:
 Message 873 by herebedragons, posted 06-11-2015 11:35 PM herebedragons has replied

Replies to this message:
 Message 877 by herebedragons, posted 06-11-2015 11:55 PM Faith has not replied

  
herebedragons
Member (Idle past 880 days)
Posts: 1517
From: Michigan
Joined: 11-22-2009


Message 876 of 1034 (759487)
06-11-2015 11:47 PM
Reply to: Message 874 by Faith
06-11-2015 11:37 PM


Re: Evidence of adaptation (but mutation?}
Faith writes:
Again you are assuming genetic adaptation. That's a tenet of the ToE that is an assumption without any real evidence.
Faith writes:
HBD writes:
Now imagine there is a mutation in allele R in population B, lets call it r. There is a deletion of a small section of DNA, creating a stop codon and a truncated protein. This protein is non functional, but it is also recessive since the other alleles are dominant. So as long as it is paired with a dominant allele the organism is viable. Thus this recessive allele can "hide" in heterozygotes and spread through the population.
So now we have alleles R, Q and r in the daughter population. So now the allele combinations in population B are:
RR, RQ, Rr, QQ, Qr (we can assume that rr will be non-viable) - 5 allele combinations.
Now what happens if there is another mutation? Let's say that allele Q has a substitution and this substitution changes the amino acid coded for but doesn't change the function of he protein. We can however detect this allele when we sequence it. Let's call it Q*. So now the combinations we have are:
RR, RQ, Rr, RQ*, QQ, Qr, QQ*, Q*r, Q*Q* 9 allele combinations!
So you've added a couple of neutral or nonfunctioning mutations and get greater genetic diversity. So what else is new? If it doesn't change the phenotype you think you've proved something?
For one thing the scenario is totally hypothetical. It may never have happened and never will happen.
HBD
Edited by herebedragons, : No reason given.

Whoever calls me ignorant shares my own opinion. Sorrowfully and tacitly I recognize my ignorance, when I consider how much I lack of what my mind in its craving for knowledge is sighing for... I console myself with the consideration that this belongs to our common nature. - Francesco Petrarca
"Nothing is easier than to persuade people who want to be persuaded and already believe." - another Petrarca gem.
Ignorance is a most formidable opponent rivaled only by arrogance; but when the two join forces, one is all but invincible.

This message is a reply to:
 Message 874 by Faith, posted 06-11-2015 11:37 PM Faith has not replied

  
herebedragons
Member (Idle past 880 days)
Posts: 1517
From: Michigan
Joined: 11-22-2009


Message 877 of 1034 (759488)
06-11-2015 11:55 PM
Reply to: Message 875 by Faith
06-11-2015 11:39 PM


Re: Is genetic diversity too complex a topic?
HBD writes:
Faith writes:
and as I already said MANY TIMES it's quite measurable.
Not really. Genetic diversity is more of an abstract concept. We don't report that "genetic diversity of population A is "X value." It's not hard to define the concept of genetic diversity, but to actually report the "genetic diversity" of a species is not realistic.
Faith writes:
Heterozygosity for instance, AS I'VE SAID MANY TIMES, is synonymous with genetic diversity... This and Alleles per Locus
Well, you are wrong. Heterozygosity is a measure we use to estimate diversity, to have an idea how much variability there is within a population, but it is not synonymous with genetic diversity. Neither is alleles per locus. Think about it, we could have a population with 2 alleles at a given locus with each allele at a frequency of 0.50 which would mean the heterozygosity is 50%. Then we could have another population with 3 alleles that is highly inbreed where heterozygosity is <10%. Which one has higher genetic diversity? What is the value of genetic diversity (and units) for each population? What numerical value for genetic diversity would be considered low or high?
To which you respond
Faith writes:
All you are doing is giving your own assertions. If you actually have evidence that I'm wrong provide it.
HBD

Whoever calls me ignorant shares my own opinion. Sorrowfully and tacitly I recognize my ignorance, when I consider how much I lack of what my mind in its craving for knowledge is sighing for... I console myself with the consideration that this belongs to our common nature. - Francesco Petrarca
"Nothing is easier than to persuade people who want to be persuaded and already believe." - another Petrarca gem.
Ignorance is a most formidable opponent rivaled only by arrogance; but when the two join forces, one is all but invincible.

This message is a reply to:
 Message 875 by Faith, posted 06-11-2015 11:39 PM Faith has not replied

  
mikechell
Inactive Member


Message 878 of 1034 (759489)
06-11-2015 11:59 PM
Reply to: Message 833 by Faith
06-11-2015 3:51 AM


Re: Evidence of adaptation (but mutation?}
Even though you haven't used any highly technical language it's still too technical for me to follow easily, there's too much detail and I really wish you would just boil it down to simple English.
I wrote this a few posts back ... doesn't get much simpler than this.
The adaptation is NOT a response to the environment. It is an accidental perturbation in the "new" genes of the offspring. But the first cat that had extra speed was able to bring down available game by itself better than the previous generation and "impressed" a mate and reproduced. This happened again and again through many generations. What we see now is just the "newest model" of the Cheetah line. Slimmer, faster cats were just more capable and reproduced.
Genetic adaptation IS an accident. It's NOT a "choice". If that "accident" is beneficial, it propagates through successive generations because it HELPS reproduction.
Nothing in this process though is "irreversible" and does not lead to genetic dead ends.

evidence over faith ... observation over theory

This message is a reply to:
 Message 833 by Faith, posted 06-11-2015 3:51 AM Faith has not replied

  
PaulK
Member
Posts: 17825
Joined: 01-10-2003
Member Rating: 2.2


(1)
Message 879 of 1034 (759492)
06-12-2015 1:22 AM
Reply to: Message 842 by Faith
06-11-2015 5:17 AM


Re: macroevolution not impossible -- it has been observed.
So, since you haven't replied I think we can assume that I was correct. That your claim that
quote:
Everything I've seen about the cheetah is that it was formed by a bottleneck, a purely random and not health-promoting event.
is based on nothing but your own wishful thinking. Not one source, not one piece of evidence, not one argument beyond your own assumptions.
But your whole argument is based on the idea of drift producing adaptive change - and idea rightly rejected by biologists because it relies too heavily on chance. A desperate and irrational need to deny any significant role for natural selection in evolution is not a good reason for overturning that judgement. And anyone who really cared about the truth would agree.

This message is a reply to:
 Message 842 by Faith, posted 06-11-2015 5:17 AM Faith has not replied

  
Admin
Director
Posts: 13023
From: EvC Forum
Joined: 06-14-2002
Member Rating: 1.9


Message 880 of 1034 (759501)
06-12-2015 8:37 AM
Reply to: Message 874 by Faith
06-11-2015 11:37 PM


Re: Evidence of adaptation (but mutation?}
Hi Faith,
Since it might not have been obvious, let me explain that the quotes HBD provided in his Message 876 were his attempt to answer your question about why he posted the information and how it was relevant to the topic. The thread history revealed in the quotes shows that he posted the information about that specific example in response to your assertion that his claims were "totally hypothetical." His example was one of adaptation through mutation, and it is relevant because it is evidence against two of your contentions:
  • Mutations do not produce significant traits.
  • Adaptation through selection is rare.

--Percy
EvC Forum Director

This message is a reply to:
 Message 874 by Faith, posted 06-11-2015 11:37 PM Faith has not replied

  
Admin
Director
Posts: 13023
From: EvC Forum
Joined: 06-14-2002
Member Rating: 1.9


Message 881 of 1034 (759503)
06-12-2015 9:08 AM
Reply to: Message 860 by Faith
06-11-2015 12:01 PM


Moderator Ruling
Faith writes:
In this case it must be natural selection, different versions showing up and the adapted one surviving, but nothing was said to prove it was a mutation.
I didn't originally reply to this because JonF and HBD both responded, but you haven't replied to them. HBD explained in Message 823 that in the Italian population of Arabidopsis thaliana that its CBF-2 gene contained a "deletion of 13 nucleotides which resulted in a stop codon and a truncated protein." This is the kind of allelic difference that simple mutations produce.
I assume you prefer to believe that in the absence of observations of the original mutation actually happening that the genetic difference between the two Arabidopsis thaliana population was there from the beginning, but we know that the copying of genetic material that occurs during reproduction is not perfect and that mutations are an inevitable byproduct of all reproductive events. You've avoided all arguments that mutations must have happened, for instance, the argument that the human genome (and indeed probably the genomes all species everywhere) contains far more diversity than could have originated from Noah's small family, unless mutations occurred (and for a much longer period than the 4500 years since the flood).
You cannot continue insisting that something hasn't been proved simply because you refuse to discuss it, so I'm ruling that you have to address the issue of the origin of existing diversity from a small family group for humans and from 1 or 7 pairs for the rest of life. Until you do then I'm ruling that mutations explain genetic differences and can have significant phenotypic effects.
Also, you've been ignoring my requests for clarification, so to help discussion move ahead, and until you actually do respond with clarifications, participants should assume this about your postion:
  • Speciation as defined by the science of biology is impossible.
There were other points on which I was seeking clarification, but one at a time.

--Percy
EvC Forum Director

This message is a reply to:
 Message 860 by Faith, posted 06-11-2015 12:01 PM Faith has not replied

  
Faith 
Suspended Member (Idle past 1466 days)
Posts: 35298
From: Nevada, USA
Joined: 10-06-2001


Message 882 of 1034 (759518)
06-12-2015 1:38 PM
Reply to: Message 852 by Admin
06-11-2015 10:57 AM


Re: Moderator Clarification Request: speciation, mutations
Faith writes:
Which is the argument everyone has, but as I keep trying to get across, even if you could get sufficient genetic diversity from mutations at a point of genetic depletion, (and if you could the cheetah would have been saved long ago but it's not happening) you'd just be getting scattered new traits within the population and not a new subspecies or species; that requires the processes that bring about reduced genetic diversity. If speciation really is the way new biological species arise then evolution is not happening unless you are getting the processes that lead to speciation and those are the processes that reduce genetic diversity, so adding diversity may get you a new trait or two but otherwise it goes nowhere evolutionarily speaking.
In this passage you seem to accept speciation as possible. In other messages you've said speciation was impossible. Complicating things have been your attempts to redefine the term speciation. An answer to this simple question would be very helpful:
Is speciation as defined by the science of biology for mammals (your preferred class) possible or not?
Yes as far as the event goes, no to the ToE interpretation of it:
Speciation is a term given to an event that does in fact occur and is in fact characterized by inability to interbreed. My argument is that the new species thus formed can't be the basis for further evolution because it lacks sufficient genetic diversity.
Also, you say that mutations could only cause "scattered new traits within the population." You've said this many times, and you've received the same response many times: advantageous traits would spread through the population. An answer to this simple question would also be very helpful:
Given that advantageous traits caused by mutations would spread through a population, why do you think the new allele combinations caused by mutations are any less able to cause significant phenotypic change than new allele combinations of existing alleles?
Spreading through the population is the same thing as forming a new subspecies by a population split: spreading requires the loss of competing alleles or loss of genetic diversity just as I keep saying all the "subtractive" or "selection" processes do.
I doubt that mutations contribute much in the way of functioning alleles, but IF THEY DO, which is the concession I always try to make here, then they are NOT "any less able to cause significant phenotypic change than new allele combinations of existing alleles" -- the effect should be the same.
Edited by Faith, : No reason given.

This message is a reply to:
 Message 852 by Admin, posted 06-11-2015 10:57 AM Admin has replied

Replies to this message:
 Message 883 by Admin, posted 06-12-2015 2:02 PM Faith has not replied
 Message 884 by NoNukes, posted 06-12-2015 2:16 PM Faith has replied

  
Admin
Director
Posts: 13023
From: EvC Forum
Joined: 06-14-2002
Member Rating: 1.9


Message 883 of 1034 (759520)
06-12-2015 2:02 PM
Reply to: Message 882 by Faith
06-12-2015 1:38 PM


Re: Moderator Clarification Request: speciation, mutations
Faith writes:
Yes as far as the event goes, no to the ToE interpretation of it:
Speciation is a term given to an event that does in fact occur and is in fact characterized by inability to interbreed. My argument is that the new species thus formed can't be the basis for further evolution because it lacks sufficient genetic diversity.
Well, this is sure to receive a lot of comment. Let me rephrase so you can confirm the correct interpretation:
  • A new species can form from an existing species, but only once, and once that speciation event occurs there can be no further speciation events for either the new species or the original species.
Spreading through the population is the same thing as forming a new subspecies by a population split: spreading requires the loss of competing alleles or loss of genetic diversity just as I keep saying all the "subtractive" or "selection" processes do.
I doubt that mutations contribute much in the way of functioning alleles, but IF THEY DO, which is the concession I always try to make here, then they are NOT "any less able to cause significant phenotypic change than new allele combinations of existing alleles" -- the effect should be the same.
This needs to be boiled down into something concise, so again let me rephrase so you can confirm the correct interpretation:
  • Mutations are unlikely to contribute functional genetic material.
  • But any functional genetic material contributed by mutations can have the same degree of phenotypic impact as new allele combinations.
Please confirm or correct the italicized bullet points.

--Percy
EvC Forum Director

This message is a reply to:
 Message 882 by Faith, posted 06-12-2015 1:38 PM Faith has not replied

Replies to this message:
 Message 885 by NoNukes, posted 06-12-2015 2:19 PM Admin has replied

  
NoNukes
Inactive Member


(1)
Message 884 of 1034 (759521)
06-12-2015 2:16 PM
Reply to: Message 882 by Faith
06-12-2015 1:38 PM


Re: Moderator Clarification Request: speciation, mutations
My argument is that the new species thus formed can't be the basis for further evolution because it lacks sufficient genetic diversity.
And your reason why new diversity cannot be added to the newly formed species is what exactly?
Tell us in quantitative or qualitative terms how much diversity a population must have and then how much must be lost via speciation so that we can see that the final diversity is insufficient. And then explain why new mutations cannot overcome the problem. Provide arguments/evidence and not just assertions.
Because without that, what you are calling argument is mere assertion and thus cannot be said to demonstrate anything other than your belief.
And then perhaps this thread can given a mercy killing.
I doubt that mutations contribute much in the way of functioning alleles, but IF THEY DO, which is the concession I always try to make here, then they are NOT "any less able to cause significant phenotypic change than new allele combinations of existing alleles" -- the effect should be the same.
I'll be using this admission to check your work.

Under a government which imprisons any unjustly, the true place for a just man is also in prison. Thoreau: Civil Disobedience (1846)
History will have to record that the greatest tragedy of this period of social transition was not the strident clamor of the bad people, but the appalling silence of the good people. Martin Luther King
If there are no stupid questions, then what kind of questions do stupid people ask? Do they get smart just in time to ask questions? Scott Adams

This message is a reply to:
 Message 882 by Faith, posted 06-12-2015 1:38 PM Faith has replied

Replies to this message:
 Message 894 by Faith, posted 06-13-2015 1:54 AM NoNukes has replied

  
NoNukes
Inactive Member


Message 885 of 1034 (759522)
06-12-2015 2:19 PM
Reply to: Message 883 by Admin
06-12-2015 2:02 PM


Re: Moderator Clarification Request: speciation, mutations
A new species can form from an existing species, but only once, and once that speciation event occurs there can be no further speciation events for either the new species or the original species.
I don't see a claim from Faith about the original species.

Under a government which imprisons any unjustly, the true place for a just man is also in prison. Thoreau: Civil Disobedience (1846)
History will have to record that the greatest tragedy of this period of social transition was not the strident clamor of the bad people, but the appalling silence of the good people. Martin Luther King
If there are no stupid questions, then what kind of questions do stupid people ask? Do they get smart just in time to ask questions? Scott Adams

This message is a reply to:
 Message 883 by Admin, posted 06-12-2015 2:02 PM Admin has replied

Replies to this message:
 Message 890 by Admin, posted 06-12-2015 4:29 PM NoNukes has not replied

  
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