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Author Topic:   Molecular Population Genetics and Diversity through Mutation
NoNukes
Inactive Member


Message 274 of 455 (785779)
06-10-2016 1:39 PM
Reply to: Message 265 by Faith
06-10-2016 8:37 AM


Re: Situation
Depends on the severity of the selection, and in any case they will be decreased as the fitter are selected.
Wrong. It depends on the nature of selection. If there is no reason to select grey eyes over green eyes, then natural selection would allow both. So no they would not of necessity be decreased as a per centage of the population if fitness does not matter.
If your ideas make any sense, you certainly are not able to communicate that sense to anyone. Perhaps you have some working idea that you cannot get out to us?

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 265 by Faith, posted 06-10-2016 8:37 AM Faith has not replied

  
NoNukes
Inactive Member


Message 286 of 455 (785808)
06-11-2016 2:06 PM
Reply to: Message 281 by Faith
06-11-2016 1:04 PM


Will this bit of progress turn out to be permanent?
Progress. This represents a yielding to an objection that has been raised in every single thread on this topic. In previous incarnations, the answer has been that folks don't understand. This time, something different... (emphasis added by me)
herebedragons writes:
But you have stated that to get a pure breed you have to eliminate all the alleles for other breeds.
Faith writes:
Yes, I think of the extra alleles having already been added a long time ago. Yes I guess I'm going to have to give up that idea. Some explanation is needed but not accidental replication events.
Will we ever get such an explanation? Or will we see back tracking over this idea. Because the idea give up here is absolutely central to Faith's position.

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 281 by Faith, posted 06-11-2016 1:04 PM Faith has replied

Replies to this message:
 Message 287 by Faith, posted 06-11-2016 2:28 PM NoNukes has replied

  
NoNukes
Inactive Member


Message 297 of 455 (785823)
06-11-2016 4:24 PM
Reply to: Message 287 by Faith
06-11-2016 2:28 PM


Re: The usual wacko misreading, NN
The idea that the alleles were added a long time ago is NOT central to my position, it's one of various hypotheses I have about how polymorphous loci came about.
I respectfully disagree. It is essential to your position, because you think all of the genetic diversity in, for example dogs, must have been present in wolves with mutations playing no role at all. You routinely argue, for example, that black moths existed all along.
If you are going to give up on that idea, and still not allow mutations, you owe us some other mechanism you have yet to explain. Come up with that, and then I will agree with you that the idea you renounce is not so important.
But I would bet on you simply going back on the idea regarding alleles. Maybe you'll just forget what you said here.

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 287 by Faith, posted 06-11-2016 2:28 PM Faith has not replied

  
NoNukes
Inactive Member


Message 298 of 455 (785824)
06-11-2016 4:29 PM
Reply to: Message 290 by Faith
06-11-2016 2:43 PM


Re: An allele by any other name
"Allele" implies USEFUL CODING FUNCTIONAL form of a gene, not "neutral" unfunctioning mutations or deleterious mutations.
Cute. This is simply your way of having your cake and eating it as well. By defining allele in this way, you can deny that mutations create alleles rather than continuing to argue that evolution that evolution does not work despite the fact that mutations add diversity.
I've recommended to you that you back off to that position at various times during the thread. Are you actually doing so? Shouldn't you let Genomics know how you define allele?

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 290 by Faith, posted 06-11-2016 2:43 PM Faith has not replied

  
NoNukes
Inactive Member


Message 308 of 455 (785836)
06-11-2016 10:40 PM
Reply to: Message 300 by Tangle
06-11-2016 6:53 PM


Re: Mutations are not alleles
Faith writes:
Mutations "add diversity" eh? Yeah, diverse diseases for sure.
Tangle writes:
Correct. Like sickle cell anaemia
"severe hereditary form of anaemia in which a mutated form of haemoglobin distorts the red blood cells into a crescent shape at low oxygen levels. It is commonest among those of African descent.
An example which illustrates yet another principle. Deleterious and beneficial are terms which characterize mutations with respect to fitness and generally are meaningful in that context. Individuals carrying a single copy of the mutation are not affected by the sickle cell disease and are highly protected against malaria. In regions where malaria is common, for example in some regions of Africa, the sickle cell trait is actually beneficial.
Of course there are some mutations that are not beneficial in any context, but clearly some mutations, can only be classified with respect to their specific environment.

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 300 by Tangle, posted 06-11-2016 6:53 PM Tangle has not replied

  
NoNukes
Inactive Member


Message 309 of 455 (785838)
06-12-2016 12:06 AM
Reply to: Message 301 by Faith
06-11-2016 7:08 PM


Same as the old boss...
HE WAS REFERRING TO PHENOTYPIC DIVERSITY WHICH MAKES HASH OUT OF MY ARGUMENT WHICH IS ALL ABOUT GENETIC DIVERSITY. If you can't grasp that much and obviously you can't just as he can't this discussion is hopeless. How do I keep trying to convince myself it's not when it so clearly is?
That was certainly clear enough. Different chihuahuas are simply different phenotypes then.
Faith, I'd like to introduce you to a poster arguing against the theory of evolution in this thread.
EACH of those breeds has its own specific genetic substrate that EXCLUDES the genetic diversity in the ENTIRE REST OF THE DOG SPECIES.
Oh, wait... It appears you two do know each other.
Edited by NoNukes, : No reason given.

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 301 by Faith, posted 06-11-2016 7:08 PM Faith has not replied

  
NoNukes
Inactive Member


(1)
Message 316 of 455 (785857)
06-12-2016 12:35 PM
Reply to: Message 312 by Faith
06-12-2016 6:57 AM


Re: Mutations are not alleles
Then there was that Wikipedia article that pretty much defined polymorphic genes as disease-causers.
Nope. It says may. That is not a definiton.
Trusting you guys in a sense, not realizing that you don't distinguish between disease-causing alleles and normal variants.
What's hilarious about this is that you've been given about a dozen examples of observed mutations, none of which meet the definition of 'disease-causing alleles.' Beyond that, the article simply does not define things as you claim. It discusses a possible outcome of mutation. Then in the best kettle/pot fashion you complain of having to address straw men.
In fact as I think about it now ALL mutations of alleles create polymorphic genes. That's what the mutations DO to alleles.
Wow, let's examine this chain of logic. You "learned" that mutations to polymorphic genes may, I mean "are defined" as causing disease. You have decided that they always lead to disease, and then you decide that all mutations create polymorphic genes. You reached this conclusion despite knowing of contrary examples.
Let's review another thought path. You've been trying for years to tell us that evolution must inevitably reduce diversity and for that reason evolution cannot produce the results claimed by the theory of evolution even if mutations do work. That is the basis of this particular thread. But somehow it is our fault that you've tricked into discussing mutations as a possible answer? Really, Faith? Is it accurate to say what you are saying.
Finally, you are so far off of your original premise, that you cannot even keep straight whether breeding or any other evolution does or does not involve new genotypes. It's okay to change your mind. I've been urging you to do this throughout the thread, but you ought to at least be honest about "refocusing" rather than blaming others.
Edited by NoNukes, : No reason given.
Edited by NoNukes, : No reason given.

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 312 by Faith, posted 06-12-2016 6:57 AM Faith has not replied

  
NoNukes
Inactive Member


Message 320 of 455 (785926)
06-13-2016 2:30 PM
Reply to: Message 318 by Faith
06-13-2016 2:08 PM


Reading is fundamental...
Emphasis added by me.
The Wikipedia article concerned ONLY disease processes, why is that? You'd think such an article would make an attempt to be inclusive of all the forms but no it only mentions three diseases. ONE mention of a normal variant in the fur color illustrated by the mice in the picture.

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 318 by Faith, posted 06-13-2016 2:08 PM Faith has not replied

  
NoNukes
Inactive Member


(1)
Message 337 of 455 (785966)
06-13-2016 11:25 PM
Reply to: Message 329 by Faith
06-13-2016 4:12 PM


Bad alleles are not really alleles...?
Dr. Adequate writes:
Oh, that's easy. In the Faith Theory Of Evolution And Not Reading Good, the only bit that counts is the bit highlighted in red, which is a loss of genetic diversity. The other stuff is irrelevant, as is the fact that genetic diversity has increased.
Perfect misrepresentation of my argument.
A misrepresentation? Or is it your actual argument? I'll admit to making posts lampooning your arguments, but I think I get them right a higher percentage of the time than you might want to acknowledge. I'm not perfect of course,and of course you'll take any error as proof that folks don't understand you. So I try to be extra careful before I post here. Often, all I need to do to poke fun is to quote you without comment.
Poking fun is easy because your own posts seem to include what you claim is straw manning of your argument.
Examples below:
Here is why Dr. Adequate and others might say the kind of things quoted above.
Yes of course, "if genetic diversity is determined by a combination of mutation rate, population size, genetic drift, and selection" you'll get increased heterozygosity. But that isn't evolution, that isn't how new species come about. That's a see-saw between adding and subtracting that overall gets called evolution but it's only the subtractive processes that form the new species.
or
I would think you would have known from everything I've said so far that I differentiate between the additive and the subtractive processes. Calling all of them collectively "evolution" is standard practice, but in reality they do different things. It's the subtractive processes that take the accumulated genetic diversity and shape it into new varieties and species, which is where what I call "active evolution" is happening, while the accumulation of diversity would never ever form a new species. That takes selection. Which I've said so many times it's rather disingenuous of you to pretend the point hasn't been made.
Here is why people repeatedly point out that species really are not homogeneous collections of people/animals/plants, often using things like dogs or even races of humans as an example.
And lose their character as homogeneous species or breeds in the process, thus preventing evolution. Evolution can get stopped by adding genetic diversity which interferes with species formation
Yeah but again, selecting a mutation for breeding is not what I was talking about. You are changing the subject. Once you have your trait selected then breeding follows the processes I’ve been outlining, that lead to reduced genetic diversity. It's AFTER all this that mutations would mess up the breed.
The context is that selection, random or otherwise, gets new gene frequencies, new gene frequencies bring out new phenotypes, getting new phenotypes requires losing alleles, reproductive isolation of these phenotypes can produce a new subspecies which must trend toward reduced genetic diversity as a result. This is evolution. There's no point in examining other contexts when I know this is evolution and it costs genetic diversity.
Finally, if you cannot keep points about your argument straight, what chance to we have:
Here is you talking about whether species consists of distinct genotypes and accusing me of missing the point.
NN writes:
Faith's answer is probably along the lines of 'generating new genotypes is not evolution' or something similar to that.
Faith writes:
Generating a new phenotype is definitely evolution. I suppose you think you understand my argument? Just proved you haven't a clue.
Faith writes:
Meant genotype.
You later confirming my point...
Faith writes:
And when you start out saying we need to explain "new genotypes," my answer is that there shouldn't be any new genotypes anywhere in the evolution of a Kind.
Of course you've also since then backed off and reversed course on this particular point, and then pretended that your new position was of no consequence to your argument. As if.
Edited by NoNukes, : No reason given.

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 329 by Faith, posted 06-13-2016 4:12 PM Faith has replied

Replies to this message:
 Message 339 by Faith, posted 06-14-2016 4:35 AM NoNukes has replied

  
NoNukes
Inactive Member


Message 341 of 455 (785983)
06-14-2016 8:22 AM
Reply to: Message 339 by Faith
06-14-2016 4:35 AM


Re: Bad alleles are not really alleles...?
Except for the one about genotype, there are no contradictions in your quotes of me, it's all in your own head.
I did not claim that there were contradictions in your other quotes. I provided notes in each section explaining exactly why material was quoted. The first section showed where your own comments justified the summary Dr. Adequate provided. The second section illustrated your ridiculous statements that species were composed of homogeneous individuals, when observation of dogs and humans, no matter how sub divided, show that individuals clearly are not homogeneous. Yet being homogeneous is essential to your "mutations ruins the species" litany. At least it did until you basically bailed on your argument and went for the all allele mutations are disease path.
The third section only shows contradictions involved both you claiming I misunderstood you, you later, and on more than one occasion demonstrating that I was correct, and then you finally changing your mind about all of that. It did not describe simply one mistake on the topic but a waffling back and forth. The result of your backing away afterwards is that you are left in the position of misinterpreting references about mutation to find at least some support for your ideas. Small wonder that the next few posts by others were full of ridicule.
If you want to deny repeatedly made errors, how about if we just refer to your misstating of the theory of evolution in the face of repeated citings of references to the contrary. Yeah, we've noticed how you finally stopped pretending that the theory of evolution does not include variation after adamantly insisting otherwise.
Edited by NoNukes, : No reason given.

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 339 by Faith, posted 06-14-2016 4:35 AM Faith has not replied

  
NoNukes
Inactive Member


Message 344 of 455 (786005)
06-14-2016 4:09 PM
Reply to: Message 343 by herebedragons
06-14-2016 2:39 PM


Re: Mutations are not alleles
Breeders selected for those traits, didn't they. Thus why breeding is referred to as ARTIFICIAL SELECTION. Traits that in the wild would be detrimental actually give the individuals greater reproductive success - which would mean that the traits in question, despite their seemingly harmful effects, have improved fitness - that is, individuals are selected FOR those traits.
This would not be the first instance, nor will it be the last one, in which breeders deliberately go for some specific traits and end up producing breeds with health issues. And not all, or even most of those compromised health results are the result of mutation. Yes there are lots of great dogs out there, but humans insist on, and get some pretty messed up dogs on purpose.
If the idea is to blame the mutations for the dogs health, let's be clear that the breeders in this case selected for extreme cranial changes and got the result they wanted. They probably could have gone for a better health/shape mix.

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 343 by herebedragons, posted 06-14-2016 2:39 PM herebedragons has replied

Replies to this message:
 Message 367 by herebedragons, posted 06-14-2016 11:06 PM NoNukes has replied

  
NoNukes
Inactive Member


Message 348 of 455 (786013)
06-14-2016 5:30 PM
Reply to: Message 345 by Faith
06-14-2016 4:42 PM


Re: Mutations are not alleles
Did you just say that since bulldogs are selected for their unhealthy traits that makes it hard to call them unhealthy? After all it facilitates their survival through their reproductive advantage through human intervention.
You can call them what you will. But according to artificial human standards, which include neutering or other wise not allowing other dogs to breed, they would be more fit. But of course we don't generally apply the term fit where artificial selection occurs. It is probably not likely that natural selection would act similarly.
Let's also recall that only a small percentage of dogs of any breed would have any chance of survival in the wild without human assistance, and an extremely small percentage of even those dogs would be able to compete against wolves if they found themselves in such a niche. Most healthy dogs are not fit by that definition. How much of that would you consider to be the result of mutation?

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 345 by Faith, posted 06-14-2016 4:42 PM Faith has not replied

  
NoNukes
Inactive Member


(1)
Message 356 of 455 (786027)
06-14-2016 9:29 PM
Reply to: Message 355 by Faith
06-14-2016 9:14 PM


Re: Mutations are not alleles
Aren't you supposed to be a genius? You are certainly obtuse for a genius. The mutations don't count because they would only function as normal alleles anyway,
Yet another keeper.
Assuming that they do function as normal alleles, unlke the old ones which were normal and already present, new alleles do increase diversity because they don't necessarily displace or remove the old alleles from the population, just from the individual gaining the mutation. Absent yet another selection event (like a breeder deciding that the new allele is "icky", what you have just acknowledged is a mechanism for increasing diversity within a breed or species.
Nice work. Whose side are you on anyway?

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 355 by Faith, posted 06-14-2016 9:14 PM Faith has not replied

  
NoNukes
Inactive Member


Message 368 of 455 (786039)
06-15-2016 12:49 AM
Reply to: Message 367 by herebedragons
06-14-2016 11:06 PM


More from the Great Debate. No commentary needed.
Faith writes:
So you've got increased MTDNA diversity, which is nothing but a bunch of meaningless mutations absolutely unrelated to the genetic diversity that is lost in the evolutionary scenarios I've been describing. I realize this is too absurd to be true but I have no other way of making sense of this.

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 367 by herebedragons, posted 06-14-2016 11:06 PM herebedragons has not replied

  
NoNukes
Inactive Member


(2)
Message 399 of 455 (786453)
06-21-2016 11:22 PM
Reply to: Message 396 by Faith
06-21-2016 6:27 PM


Re: Once again now, evolution of new phenotypes REQUIRES loss of genetic diversity
My theory says all the genetic material for variation is built in
A "theory" for which there is absolutely no evidence. I could describe a number of scientific problems with your theory having to do with the number of alleles that get inscribed in a single person's genome per location, but the most significant problem is not about the science at all.
From Message 281
Faith writes:
Yes, I think of the extra alleles having already been added a long time ago. Yes I guess I'm going to have to give up that idea. Some explanation is needed but not accidental replication events.
Again, you occasionally do realize that one of your ideas does not work. But that never seems to prevent you from re-earthing those same ideas if they are needed again. I understand, as you expressed in the post I quoted that it is vital that you find some method of variation other than mutations, but you have not done so. Your need to return to discarded ideas indicates that you are probably never going to come up with an explanation that works.
Edited by NoNukes, : No reason given.

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 396 by Faith, posted 06-21-2016 6:27 PM Faith has not replied

  
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