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Natural selection v Intelligent design

FrumiousBandersnatch

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It seems the evidence points to certain laws and codes that were in place from an early time in history that everything works to. It may appear that it is self creating but it still draws on those laws as the basic driving force which allows everything to bloom out from this.
It has nothing to do with 'self creation'; self-organizing criticality is a mechanism by which complexity can emerge from surprisingly simple systems. 'Self-organizing' refers to its robustness to changes in initial conditions, i.e. the complexity emerges without fine tuning.

The evidence for evolution show that mutations are primarily a cost and loss of info and not a creator of more complex systems and functional ability. This is the opposite of evolution.
It might be if it was true; it isn't, and repeating it won't make it so. But I'd be interested to see your source for this.

The evidence for what we see in the universe and existence itself shows order and precision which doesn't come from a random naturalistic process. Inorganic matter is just that and has no creative ability at all. Yet we are told to believe that matter can just about create itself just like life almost into a more complex well orchestrated existence. If anything everything is heading in the opposite direction through entropy. Even out genomes.
This is both a straw man argument (we aren't told that 'matter can just about create itself'), and an argument from ignorance and incredulity. Increasing entropy is what drives local increases in complexity; this is basic thermodynamics.
 
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stevevw

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It has nothing to do with 'self creation'; self-organizing criticality is a mechanism by which complexity can emerge from surprisingly simple systems. 'Self-organizing' refers to its robustness to changes in initial conditions, i.e. the complexity emerges without fine tuning.
If its about robustness then evolution doesn't seem to have that robustness when it comes to mutations evolving fitter and more complex living things. Its not just about self organizing either when it comes to evolution. Mutations are random and the genetic code is a complex language that needs to be precise to enable it to work. The likelihood of mutations even evolving simple functions that were not there has been tested and shown to be almost impossible. It isn't about mutating new genetic info and progressing towards an increase in complexity and ability. Its more about filtering out the bad effects of mutations in the first place. Most of the energy is dedicated to avoiding mutations altogether as any change to what is already a good and healthy state is a cost to survival.

It might be if it was true; it isn't, and repeating it won't make it so. But I'd be interested to see your source for this.
Even if there may be some very rare beneficial mutations its still not enough. To even get the small chance mutations for simple change takes millions and millions of years. To be able to evolve the amount of complex variety that has ever been and is now would take more time than the earth has been around. Plus there would be a massive amount of very sick creatures in between because for every very rare good mutation there will be millions of costly ones that have to be dealt with.
The Limits of Complex Adaptation: An Analysis Based on a Simple Model of Structured Bacterial Populations
http://bio-complexity.org/ojs/index.php/main/article/view/BIO-C.2010.4
Estimating the prevalence of protein sequences adopting functional enzyme folds
this implies the overall prevalence of sequences performing a specific function by any domain-sized fold may be as low as 1 in 10^77, adding to the body of evidence that functional folds require highly extraordinary sequences.
http://www.ncbi.nlm.nih.gov/pubmed/15321723
10^77 is written out as 100, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000, 000). So a 1 in 10^77 chance of success is, for all practical purposes, no chance of success.


Threshold robustness is inherently epistatic—once the stability threshold is exhausted, the deleterious effects of mutations become fully pronounced, thereby making proteins far less robust than generally assumed.
http://www.nature.com/nature/journal/v444/n7121/full/nature05385.html
A systematic survey of loss-of-function variants in human protein-coding genes
Genome sequencing studies indicate that all humans carry many genetic variants predicted to cause loss of function (LoF) of protein-coding genes, suggesting unexpected redundancy in the human genome.
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3299548/
The cost of gene expression underlies a fitness trade-off in yeast
http://www.pnas.org/content/106/14/5755.full
Evidence Of Design In Bird Feathers And Avian Respiration
http://www.witpress.com/elibrary/dne-volumes/4/2/399
The frailty of adaptive hypotheses for the origins of organismal complexity
http://www.pnas.org/content/104/suppl_1/8597.abstract
Reductive Evolution Can Prevent Populations from Taking Simple Adaptive Paths to High Fitness
http://bio-complexity.org/ojs/index.php/main/article/view/BIO-C.2010.2

This is both a straw man argument (we aren't told that 'matter can just about create itself'), and an argument from ignorance and incredulity. Increasing entropy is what drives local increases in complexity; this is basic thermodynamics.
The Coherence Of An Engineered World
Human-engineered systems are characterized by stability, predictability, reliability, transparency, controllability, efficiency, and (ideally) optimality. These features are also prevalent throughout the natural systems that make up the cosmos. However, the level of engineering appears to be far above and beyond, or transcendent of, current human capabilities.
http://www.witpress.com/elibrary/wit-transactions-on-ecology-and-the-environment/114/19279
Information And Entropy – Top-down Or Bottom-up Development In Living Systems?
http://www.witpress.com/elibrary/dne-volumes/4/4/420
 
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stevevw

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Ah, no. Although there are fundamental similarities in the genetics of all creatures, those that look similar, or have similar features, are not necessarily closely related. When an different (e.g. isolated) ecosystems provide similar niches for exploitation, similar looking creatures with similar lifestyles may evolve independently. For example, the marsupial mammals of Australia; as well as unique marsupials like wallabies & kangaroos, there are (or were) marsupial dogs, cats, rats, etc., that looked and behaved similarly and occupied similar niches to non-marsupial dogs, cats, rats, etc., in other ecosystems. Also, some physical solutions are particularly well-suited for their job - like camera eyes, or flippers. It's called convergent evolution.
Yeah I have this skepticism about convergent evolution. It just seems to much of a coincident. Its when unrelated creatures can have the same genetics as well that you begin to wonder. You would think that two different creatures in two different places would have some differences in these genes. But they are exactly the same like they were injected into each other. No variance at all and not just for a small amount but large chunks. It almost seems evolution is working to a set pattern. The thing is evolution always makes a big point about how similarities ie ape to humans in features/ anatomy should then show similarities in genes. For ape to humans they go on about the 98% similarity. So we would expect that across the board.

But it breaks down so often and the tree of life has many in-congruence. Then different shaped creatures start being linked with similar genes. Then similar shaped creatures have different genes as well. Then closely related creatures who should have similar gens are not as closely related as ones that are not suppose to be closely related. It certainly isn't straight forward. But evolution always has a name for the contradictions so that they can be explained away. For the eye to evolve so many times is incredible in that it is hard to believe it happened even once let alone many times.

The transitions aren't 'perfect' because you only ever get occasional snapshots with fossilization, and paleontologists working with very limited data will inevitably get some things wrong until more data becomes available; genetic information has been a great help. However, pruning or re-arranging a few branches on the tree doesn't make it any less a tree.
Yet they can lay out nicely arranged ape to human skulls in a transitional line like there's hardly nothing missing. But they can do this for any other creatures. It should be the case for every creature that walked the earth. They are trying to find all the links between today's humans which is where we are now and our common ancestor of apes. So there are many links in the chain they claim. If you take all today's animals and do the same you should have a progression of slightly changing features from one shaped creature to another.

So from any of today's animals back to a distant ancestor which are just two extremes such as a beginning and an end we should have many transitions. But what we seem to find is single separated creatures that are well defined on their own with very little evidence of progressive change. The sudden appearance of many and the sudden disappearance of others. The similarity in shapes for millions of years in many more. All of this points to a lack of evolution.

That can happen too, though it's unusual among complex animals. Which ones do you find troubling?
Well there is the case of the cow and snake which have very large chunks of the same DNA.
http://phenomena.nationalgeographic.com/2013/01/01/how-a-quarter-of-the-cow-genome-came-from-snakes/
But there a whole lot more as well. Humans even have similar DNA to mouse, kangaroos and a sea urchin from memory. Yet we dont look like them as we do to the apes.

Bear in mind that paleontology is a particularly competitive field because of the scope for major discoveries and career-making. This means that skepticism and challenge is the default approach to new claims and finds, and so frauds and errors are usually found out fairly quickly (particularly after some of the infamous attempts of earlier times), and there is huge incentive to overturn existing paradigms.
Yes I know thats what concerns me. But I dont think its as honest as you say. Its that there is so much that is overlooked that only the major finds may be challenged. But also other scientists will welcome some of the finds because it helps build the story of evolution. It can be assumed that a fossil found in a certain part of the ground is as old as the other fossils and the ground that a fossil is found in is assumed to be as old as the fossil found in it as well. It can be assumed that a nearby fossil belongs to its neighbor or the best one that fits belongs to its neighbor. A lot can be amused about the behaviors of animals based on the fossils which is only speculation. But often those assumptions are geared towards the theory rather than not so that it adds more flesh to the bones of evolution.

Please provide the relevant references or links to these tests.
I have done in my other post but here are some more.
Proteins with cruise control provide new perspective:
“A mathematical analysis of the experiments showed that the proteins themselves acted to correct any imbalance imposed on them through artificial mutations and restored the chain to working order.”
http://www.princeton.edu/main/...../60/95O56/
Why Proteins Aren’t Easily Recombined, Part 2 – Ann Gauger May 17, 2012
Excerpt: In other words, even if only 10% of non-matching residues were changed, the resulting hybrid enzyme no longer functioned. Why? Because the substitution of different amino acids into the existing protein structure destabilized the fold, even though those same amino acids worked well in another context. Thus, each protein’s amino acid sequence works as a whole to help generate a proper stable fold, in a context-dependent fashion.
http://www.evolutionnews.org/2.....59771.html
Extreme functional sensitivity to conservative amino acid changes on enzyme exteriors
http://www.sciencedirect.com/science/article/pii/S0022283600939974

What makes you think so? If the originator of that mutation has viable offspring - and by definition, it has a better than average chance because of the mutation - it will propagate through them. That's a gross over-simplification, but the principle applies.
I only go by the test done. The same with breeding with dogs for example. The more you play around with the original genetic makeup and move further away from the natural state the more cost to fitness happens. AS far as I understand it if a beneficial mutation is selected it is going to be a very small effect in change. That effect may be nothing on its own and will need to be further acted upon to eventually have a strong enough beneficial effect to hang around and be selected. But each mutation is random so you dont know when and where those additional mutations are coming.

In the meantime the effects of the small mutations that have already occurred aren't so great for the creature to keep because on their own they dont mean much. So they are either weeded out of they are beginning to have cost to fitness. Even if it was a very small benefit it is not enough and the disruption to the existing genes has other negative effects that will outweigh any benefit. or the benefit comes with a cost because it has also disrupted the overall genome as a consequence. So overall most mutations are a cost fact even if they are beneficial or neutral. At the end of the day mutations are an error to what is already good.

That's partly how evolution works; the badly maladapted ones die without reproducing. Do remember that ALL creatures eventually die - and nearly all get sick. 99% of all species are now extinct.
But I just dont think that the very small possibility of any benefits that mutations can have can be the driving force for such complexity and variation we see. Its like one step forward and 100 back. Its illogical and what is essentially a loss of info and a cost to fitness or an error is something that makes things fitter and adds more info and complexity. Just because mutations can change things for the worse doesn't mean they can also create things much much better. I think evolution takes something that happens one way and extrapolates something out of it that just isn't there.

Where as micro evolution which is changes in existing genetics will not be as harmful. It was designed that way and there maybe much more capability within our genomes than we think thats already there. Every creature has a build in ability to make certain changes with their environments and other living things. Between them all there's plenty of scope to change.

I'm afraid that's too garbled to make sense of.
So you didn't watch the video or the video wasn't working properly. He is saying that for just two steps with point mutations one being to take out an existing binding site which controls how a gene is expressed. The other was to give that site a new ability to be able to change how that gene is expressed. So they weren't actually changing the gene but preparing to to be able to make changes. So in other words more mutations would be needed to finish the job to actually change that gene to have a new function. From memory I think there needs to be at least 6 or 7 mutations to complete a simple change to a new function in genes. But it can take many more as well sometimes.

So its not just one mutational change that can change but many to make changes in functions. But even for these 2 simple changes the tests showed that it would take around 100 million years in humans. Considering that the changes needed for a complete change from one creature to another and all the vast complexity we see in living things this is where it becomes impossible to believe. It would take more time than the planet earth has been around. I have already posted papers showing this in an earlier post.

OK, having watched the video (8 wasted minutes of my life I won't get back), I see what you're talking about. They're implicitly assuming that all genetic evolutionary change depends on a kind of two-point mutation they say is rare; a claim that needs support - even assuming their calculations are correct - and for which no evidence is supplied.
Thats is where you need to check out the papers supplied in earlier posts. I have posted these many times. But its not just from this. Other papers I have posted show this difficulty in other tests. Other papers show the cost to fitness of mutations. Altogether it amounts to being very unlikely.

We may not understand all the complexities of gene regulation and expression, but it's clear that if the claim about the point mutation mechanism described in the video is correct (although I've seen no evidence to support that), then changes due to mutations in the real world occur via different mechanisms. In other words, empirical evidence suggests that either they're wrong, or they've shown that the two-point mutation they describe is not the only mechanism for genetic evolution - and frankly I doubt anyone else thought it was.
I guess this is the ongoing debate about the ability of evolution. It has come down to the detailed functionality of the genes themselves. Not the observational evidence or the fossil evidence which can be up for interpretation. But the actual testing of the ability of mutations and natural selection. All I know is that in all tests done there have never been able to evolve a new function that wasn't there that gave a benefit of fitness and didn't come at some cost. Most have been a tweeking of existing genetics and even when they have claimed that a new function has been created it is actually been a loss of existing genetics to gain that ability.

You would think in all the tests and some which have been going on for 20 or 30 years with bacteria that there would be some great advancement showing evolution. Instead we have these small changes that seem to be wholly within the existing genetic ability and nothing truly new.
 
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Archaeopteryx

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Yeah I have this skepticism about convergent evolution. It just seems to much of a coincident. Its when unrelated creatures can have the same genetics as well that you begin to wonder. You would think that two different creatures in two different places would have some differences in these genes. But they are exactly the same like they were injected into each other.
They are NOT exactly the same. We've been over this before.
 
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Loudmouth

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Yeah I have this skepticism about convergent evolution. It just seems to much of a coincident. Its when unrelated creatures can have the same genetics as well that you begin to wonder. You would think that two different creatures in two different places would have some differences in these genes. But they are exactly the same like they were injected into each other.

Examples?

No variance at all and not just for a small amount but large chunks. It almost seems evolution is working to a set pattern. The thing is evolution always makes a big point about how similarities ie ape to humans in features/ anatomy should then show similarities in genes. For ape to humans they go on about the 98% similarity. So we would expect that across the board.

We do see that across the board. When we compare WHOLE GENOMES we see differences, and we see more differences as the evolutionary distance increases.

However, we shouldn't see the exact same 98% different between every section of the genome. There is this thing called natural selection that causes conservation of sequences within genomes. You may have heard of it.

But it breaks down so often and the tree of life has many in-congruence. Then different shaped creatures start being linked with similar genes.

The incongruences are exactly where evolution would produce them. What we never see is a whole genome comparison that has a primate more closely related to a three toed sloth than another primate.

Then similar shaped creatures have different genes as well.

Kind of blows the whole "common creator" claim out of the water.

Then closely related creatures who should have similar gens are not as closely related as ones that are not suppose to be closely related.

Examples?

Yet they can lay out nicely arranged ape to human skulls in a transitional line like there's hardly nothing missing. But they can do this for any other creatures.

There is no penetrating this level of denial.
 
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stevevw

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Examples?
Let there be light: Evolution of complex bioluminescent traits may be predictable
The genetic underpinnings of complex traits in cephalopods may in fact be predictable because they evolved in the same way in two distinct species of squid.
"They are much more similar than we expected in terms of their genetic makeup," Oakley said. "Usually when two complicated organs evolve separately we would expect them to take very different evolutionary paths to arrive where they are today. The unexpectedly similar genetic makeup demonstrates that these two squid species took very similar paths to evolve these traits.
More specifically, the researchers demonstrated that bioluminescent organs originated repeatedly during squid evolution and then showed that the global gene expression profiles (transcriptomes) underlying those organs are strikingly -- even predictably -- similar.
http://www.sciencedaily.com/releases/2014/10/141021135020.htm
Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid
http://www.pnas.org/content/111/44/E4736.abstract
The probability of complex organs evolving multiple times with similar trajectories should be vanishingly small, noted Oakley. Yet the team's novel bioinformatic approaches indicate the evolution of convergent phenotypes is associated with the convergent expression of thousands of genes.
Surprisingly ... the overall gene expression distance between photophores is indistinguishable from the distance between expression levels of any homologous organ of the two species.
This origin of a photophore by amalgamation may have occurred at least two times during the history of squid in surprisingly similar ways, leading to predictable similarity in gene expression. ... convergent photophores is surprising because of the expectation for convergent traits to evolve by distinct genetic mechanisms.

So the similarities go down to the molecular level which are exactly the same across large sections of the genes to the point of being predictable across many species. Not just the same as an end result but the same in their pathways to that end result. You would think that separate species in different locations and different environments would have different pathways at some level. Its just to much the same as though it is the same genetics.

How do we know that all these species were not drawing on the same genetic info that was already available in their genomes that may have been laying dormant. Or that the so called junk DNA in which we are now finding much more function didn't have some sort of contribution that could ignite the ability by switching on something that was already there. This makes more sense being that it is so much the same that it becomes predictable which is a hallmark of design and existing abilities that have been installed previously.

We do see that across the board. When we compare WHOLE GENOMES we see differences, and we see more differences as the evolutionary distance increases.

However, we shouldn't see the exact same 98% different between every section of the genome. There is this thing called natural selection that causes conservation of sequences within genomes. You may have heard of it.

The incongruousness are exactly where evolution would produce them. What we never see is a whole genome comparison that has a primate more closely related to a three toed sloth than another primate.

Kind of blows the whole "common creator" claim out of the water.
Then how do you account for the differences in closely related creatures and similarities in genetics of distantly related creatures that isn't to do with convergent evolution. That is the thing sometimes its convergent and others times its not. It seems that evolution is picking and choosing how this all works to suit their theory.

The closeness in genes between other closely related creatures doesn't work the same as it does with apes and humans. Sharks and dolphins look as similar as apes to humans yet they are unrelated. Other animals are the same where they will look almost the same yet are unrelated. This then become convergent because they are unrelated. A primate should be more closely related to another primate. There is no significance in this to show evolution. If anything it shows common design. An ape is a n ape is another ape and thats it. A human is a human and a sloth is a sloth or a remember of a group of sloth types of animals like apes are members of ape type animals.

So sharks and dolphins and other fish of the sea are members of fish type animals that have a vast variety of shapes that still fall into the fish type creatures. Their genetics will vary as well and will not be limited in many cases to just fish type genomes because all creatures on earth are of common design from a common genetic blueprint.

Examples?

There is no penetrating this level of denial.

Pax-6: Where to be conserved is not conservative
Conserved sequences in the opsins of vertebrate and invertebrate photoreceptors (1), and homologous genes such as Pax-6 involved in eye development across phyla (2), challenge the hypothesis that the eyes of vertebrates and invertebrates had distinct evolutionary origins.
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC33656/
Divergence and Convergence in Enzyme Evolution: Parallel Evolution of Paraoxonases from Quorum-quenching Lactonases*
However, certain sequence motifs, such as the P-loop motif, are present in a large number of different protein superfamilies, suggesting that they were already present in the early protein ancestors.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3249062/

It seems the the evidence is also pointing to creatures all have similar genetics from an early stage and may have been able to tap into more genetic info than thought. What has been though of as created through random mutations may have been there all the time. When you consider how many creatures that according to evolution went their separate ways on the tree of life early on in their development that have similar things it makes you wonder if they didn't have the same genetics from the beginning.

Things like eyes and the use of 5 digits at the end of a limb would either have evolved many times from random mutations or had the genetic info there to begin with for all to use. This is more related to design of a common blueprint that was there in the beginning and has always been available to be used for creatures to use to change.[/QUOTE]
 
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Archaeopteryx

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Let there be light: Evolution of complex bioluminescent traits may be predictable
The genetic underpinnings of complex traits in cephalopods may in fact be predictable because they evolved in the same way in two distinct species of squid.
"They are much more similar than we expected in terms of their genetic makeup," Oakley said. "Usually when two complicated organs evolve separately we would expect them to take very different evolutionary paths to arrive where they are today. The unexpectedly similar genetic makeup demonstrates that these two squid species took very similar paths to evolve these traits.
More specifically, the researchers demonstrated that bioluminescent organs originated repeatedly during squid evolution and then showed that the global gene expression profiles (transcriptomes) underlying those organs are strikingly -- even predictably -- similar.
http://www.sciencedaily.com/releases/2014/10/141021135020.htm
Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid
http://www.pnas.org/content/111/44/E4736.abstract
The probability of complex organs evolving multiple times with similar trajectories should be vanishingly small, noted Oakley. Yet the team's novel bioinformatic approaches indicate the evolution of convergent phenotypes is associated with the convergent expression of thousands of genes.
Surprisingly ... the overall gene expression distance between photophores is indistinguishable from the distance between expression levels of any homologous organ of the two species.
This origin of a photophore by amalgamation may have occurred at least two times during the history of squid in surprisingly similar ways, leading to predictable similarity in gene expression. ... convergent photophores is surprising because of the expectation for convergent traits to evolve by distinct genetic mechanisms.
The part of the PNAS paper you didn't quote:
Pankey et al said:
The striking similarity of expression of hundreds of genes in distinct photophores indicates complex trait evolution may sometimes be more constrained and predictable than expected, either because of internal factors, like a limited array of suitable genetic building blocks, or external factors, like natural selection favoring an optimum.
And also from the abstract (emphasis added):
Pankey et al said:
Despite contingency in life’s history, the similarity of evolutionarily convergent traits may represent predictable solutions to common conditions. However, the extent to which overall gene expression levels (transcriptomes) underlying convergent traits are themselves convergent remains largely unexplored. Here, we show strong statistical support for convergent evolutionary origins and massively parallel evolution of the entire transcriptomes in symbiotic bioluminescent organs (bacterial photophores) from two divergent squid species. The gene expression similarities are so strong that regression models of one species’ photophore can predict organ identity of a distantly related photophore from gene expression levels alone. Our results point to widespread parallel changes in gene expression evolution associated with convergent origins of complex organs. Therefore, predictable solutions may drive not only the evolution of novel, complex organs but also the evolution of overall gene expression levels that underlie them.
Notice that, once again, the authors' interpretation differs significantly from your own.
So the similarities go down to the molecular level which are exactly the same across large sections of the genes to the point of being predictable across many species. Not just the same as an end result but the same in their pathways to that end result. You would think that separate species in different locations and different environments would have different pathways at some level. Its just to much the same as though it is the same genetics.

How do we know that all these species were not drawing on the same genetic info that was already available in their genomes that may have been laying dormant. Or that the so called junk DNA in which we are now finding much more function didn't have some sort of contribution that could ignite the ability by switching on something that was already there. This makes more sense being that it is so much the same that it becomes predictable which is a hallmark of design and existing abilities that have been installed previously.
Once again, you are assuming that evolution must be totally random, that there are no predictable patterns in nature, and that predictability is a diagnostic marker of design.
Then how do you account for the differences in closely related creatures and similarities in genetics of distantly related creatures that isn't to do with convergent evolution.
Citation needed. The only person claiming that it isn't convergent evolution is you. Every study you have linked to provides an example of convergent evolution, the very phenomenon you claim does not happen.
The closeness in genes between other closely related creatures doesn't work the same as it does with apes and humans. Sharks and dolphins look as similar as apes to humans yet they are unrelated. Other animals are the same where they will look almost the same yet are unrelated. This then become convergent because they are unrelated. A primate should be more closely related to another primate. There is no significance in this to show evolution. If anything it shows common design. An ape is a n ape is another ape and thats it. A human is a human and a sloth is a sloth or a remember of a group of sloth types of animals like apes are members of ape type animals.
No, this doesn't show "common design," it shows common ancestry.
Pax-6: Where to be conserved is not conservative
Conserved sequences in the opsins of vertebrate and invertebrate photoreceptors (1), and homologous genes such as Pax-6 involved in eye development across phyla (2), challenge the hypothesis that the eyes of vertebrates and invertebrates had distinct evolutionary origins.
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC33656/
I'm not going through yet another paper that you haven selectively quoted from. This is what you do: you find a paper and then you selectively quote from it and ignore the rest. Then it's up to us to actually read the paper in its entirety to show you that your interpretation of the findings is inaccurate at best, or a complete misrepresentation at worst.
It seems the the evidence is also pointing to creatures all have similar genetics from an early stage and may have been able to tap into more genetic info than thought. What has been though of as created through random mutations may have been there all the time. When you consider how many creatures that according to evolution went their separate ways on the tree of life early on in their development that have similar things it makes you wonder if they didn't have the same genetics from the beginning.

Things like eyes and the use of 5 digits at the end of a limb would either have evolved many times from random mutations or had the genetic info there to begin with for all to use. This is more related to design of a common blueprint that was there in the beginning and has always been available to be used for creatures to use to change.
You mean, like, common ancestry? That's evolution!
 
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stevevw

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The part of the PNAS paper you didn't quote:

And also from the abstract (emphasis added):

Notice that, once again, the authors' interpretation differs significantly from your own.

Once again, you are assuming that evolution must be totally random, that there are no predictable patterns in nature, and that predictability is a diagnostic marker of design.
The fact is very large amounts of genetic material are exactly the same in unrelated creatures. The authors dont prove any of this and they just speculate that this may be the result of convergent evolution. IE because they believe in evolution in the first place then the only explanation is that it must be convergent. Even if it defies belief and is astonishingly amazing they still say it can happen. They even admit in the paper you link that it should be very rare. They will even go to the point of claiming that convergent evolution has hallmarks of design rather than admit that there is something else going on.

The logical explanation is that these creatures had much of this genetic ability already there to tap into. Other evidence shows that creatures may have had a lot more existing genetic material to draw upon that has always been there. (IE all life was once microbe and 90% of life is micro organisms. Micro organisms have a immense ability to share genetic material. So all life had access to a lot of genetic material including much of the material needed to build all the body plans we see in the Cambrian explosion and today).

Evolution via mutations and natural selection is still a variable process. Unless the two creatures had exactly the same conditions right across the board then how could they have exactly the same evolutionary paths. Each animals conditions will be subject to a varying amount of things such as climate, predators, luck, population sizes, the extent to which a mutation will take hold and be selected for each circumstance and a stack of other conditions. As has been shown even to evolve simple functions will take millions of years and take many random mutations. Both will not be subject to exactly the same conditions because of the random nature of life and the random nature mutations have.

There are just to many variables we have to believe that all fall into place by chance and naturalistic processes. We would also have to believe that not only was their ability to evolve the same features with the same complex genetic material across large areas but that the evolution leading up to this was also similar to have them in similar conditions to each other. Anymore similarities and conditions and you begin to wonder when its the design you have when your not having design. It is becoming more common now for evolution to claim characteristics of design nowadays to address the design we are seeing in nature.

But when you look at it that animals had an existing amount of genetic material to draw upon that is designed to deal with certain conditions already that makes way more sense. When you consider that creatures have a greater ability to absorb genetic material from other creatures and through their environments this also makes way for sense to get that similar material. It means everything is working to a predictable similar code and pattern. So the evidence actually suits common design more.

If you combine this with the tests done which show even beneficial mutations are very very rare and still are a cost to the fitness of animals it makes even more sense that evolution is not the answer. If you combine this with the evidence fore other driving forces that change creatures which make mutations and natural selection a minor player it makes more sense again. Convergent evolution in the light of all the other evidence doesn't make sense.

Citation needed. The only person claiming that it isn't convergent evolution is you. Every study you have linked to provides an example of convergent evolution, the very phenomenon you claim does not happen.
The problem is evolution claims it but they can't prove it. They claim it because it has to be claimed because they believe its the only answer. Its part of their answer to why we have so many creatures showing similar patterns of design in nature. Its their answer because we have unrelated animals that look the same and related animals in their genetics that look different.

If you notice when they provide the evidence for convergent evolution they are surprised and even astonished like they are shocked. Its like it shouldn't be like this its just to much a coincidence. But look at what they are saying for example even in the additional link you are using to prove your case.

Unless there are strong constraints, the probability of complex organs originating multiple times through similar trajectories should be vanishingly small.

The striking similarity of expression of hundreds of genes in distinct photophores indicates complex trait evolution may sometimes be more constrained and predictable than expected, either because of internal factors, like a limited array of suitable genetic building blocks, or external factors, like natural selection favoring an optimum.

http://www.pnas.org/content/111/44/E4736.abstract
So they say it should be very rare. They speculate what the reason may be why a rare event could happen and give two which will support evolution which they have no evidence for.

So if it is so vanishing small to occur and natural selection has to favor the optimum then this must be a very rare occurrence. If its so vanishing small then how come its happening so often as evolution claims and happens to a vast extent even down to the same genes across vast sections of the genome. This is only speculation and they have absolutely no evidence for it.

How is it so rare that it even goes to the point of making evolution predictable. Like I said what evolution says should happen and what they claim does happen are two different things. Thats why many who want to disprove evolution use their own papers to show how they even acknowledge this themselves in so many ways without realizing it. Some of the best evidence against evolution is from what evolution claims itself.

No, this doesn't show "common design," it shows common ancestry.
So convergent evolution which makes a creature go down a path which is the same as an unrelated one shows common decent. Normally common decent shows close and similar connections for creatures who are related and not unrelated.

I'm not going through yet another paper that you haven selectively quoted from. This is what you do: you find a paper and then you selectively quote from it and ignore the rest. Then it's up to us to actually read the paper in its entirety to show you that your interpretation of the findings is inaccurate at best, or a complete misrepresentation at worst.
All I am doing is showing what the paper states itself. It is a hypothesis the authors make and they then present some background of how the Pax 6 may be represented in different animals and what its role may be. But one theme that seems to come through is that this gene was present early on from the beginning and even in the flat worm which are a very early ancestor in evolution. So this suggests that the evolution of the eye which is a common convergent feature in many unrelated creatures had genetic material to make it from existing genes which were already there and available to use.
http://dev.biologists.org/content/129/5/1143.full.pdf
 
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The fact is very large amounts of genetic material are exactly the same in unrelated creatures. The authors dont prove any of this and they just speculate that this may be the result of convergent evolution. IE because they believe in evolution in the first place then the only explanation is that it must be convergent. Even if it defies belief and is astonishingly amazing they still say it can happen. They even admit in the paper you link that it should be very rare. They will even go to the point of claiming that convergent evolution has hallmarks of design rather than admit that there is something else going on.
We've already been over this. I'm not retreading the same ground again.
Evolution via mutations and natural selection is still a variable process. Unless the two creatures had exactly the same conditions right across the board then how could they have exactly the same evolutionary paths. Each animals conditions will be subject to a varying amount of things such as climate, predators, luck, population sizes, the extent to which a mutation will take hold and be selected for each circumstance and a stack of other conditions. As has been shown even to evolve simple functions will take millions of years and take many random mutations. Both will not be subject to exactly the same conditions because of the random nature of life and the random nature mutations have.

There are just to many variables we have to believe that all fall into place by chance and naturalistic processes. We would also have to believe that not only was their ability to evolve the same features with the same complex genetic material across large areas but that the evolution leading up to this was also similar to have them in similar conditions to each other. Anymore similarities and conditions and you begin to wonder when its the design you have when your not having design. It is becoming more common now for evolution to claim characteristics of design nowadays to address the design we are seeing in nature.
What design? You haven't presented any evidence for design.
But when you look at it that animals had an existing amount of genetic material to draw upon that is designed to deal with certain conditions already that makes way more sense. When you consider that creatures have a greater ability to absorb genetic material from other creatures and through their environments this also makes way for sense to get that similar material. It means everything is working to a predictable similar code and pattern. So the evidence actually suits common design more.
You still think evolution is random, don't you? This entire time you have learned nothing.
If you combine this with the tests done which show even beneficial mutations are very very rare and still are a cost to the fitness of animals it makes even more sense that evolution is not the answer. If you combine this with the evidence fore other driving forces that change creatures which make mutations and natural selection a minor player it makes more sense again. Convergent evolution in the light of all the other evidence doesn't make sense.
This has already been addressed. I showed you that one of your own sources disagreed with you, yet again. It's a common pattern: you post a link as "support," yet the paper you draw on for support explicitly contradicts your position.
The problem is evolution claims it but they can't prove it.
The papers you cited provide examples of convergent evolution! Did you even read them? I doubt it. You probably copied and pasted the link from some creationist blog. That's the sort of "research" you do.
If you notice when they provide the evidence for convergent evolution they are surprised and even astonished like they are shocked. Its like it shouldn't be like this its just to much a coincidence.
We've been over this before: they are surprised by the extent of it. They aren't surprised that it happens at all; they expect it to happen.
So if it is so vanishing small to occur and natural selection has to favor the optimum then this must be a very rare occurrence. If its so vanishing small then how come its happening so often as evolution claims and happens to a vast extent even down to the same genes across vast sections of the genome. This is only speculation and they have absolutely no evidence for it.
Your interpretation is consistently out of step with the work you are citing. You say that they "have absolutely no evidence for it," even while posting links to studies that provide examples of convergent evolution! Loudmouth is right: it's difficult to penetrate this level of denial.
So convergent evolution which makes a creature go down a path which is the same as an unrelated one shows common decent. Normally common decent shows close and similar connections for creatures who are related and not unrelated.
Read what I wrote in context please. That comment was in response to a particular paragraph in which you claim "common design."
All I am doing is showing what the paper states itself.
You've been caught selectively quoting from papers in the past.
It is a hypothesis the authors make and they then present some background of how the Pax 6 may be represented in different animals and what its role may be. But one theme that seems to come through is that this gene was present early on from the beginning and even in the flat worm which are a very early ancestor in evolution. So this suggests that the evolution of the eye which is a common convergent feature in many unrelated creatures had genetic material to make it from existing genes which were already there and available to use.
http://dev.biologists.org/content/129/5/1143.full.pdf
Yeah, which is what one would expect if... common ancestry!
 
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They are NOT exactly the same. We've been over this before.
Well they dont actually know as yet. Until they can do research to see how these individual proteins are formed and what direction they come in they wont know. But just because they speculate that convergent evolution is the cause doesn't mean its true. What if they find they are exactly the same all the way through. That would either mean that each unrelated creature followed the exact same path in all things which is to much of a coincident. Or that there is something that each creature has in common that is already there.

Even when you look at two different courses happening independently they will still show some divergence here and there. They will be subject to their own individual circumstances they live in and it wont be exactly the same. The more it happens across larger groups of animals the harder it will be to believe. It may happen to a couple of animals here and there but not to a lot of animals often.

What about digits for at the end of a limb for all tetrapods. How did they all evolve a similar set of features for different creatures who live in different environments with different pressures. Each using their digits for different things such as climbing crawling walking, and grasping. Yet each evolved similar features of 5 digits on the end of a limb. Why not 3 digits or 7 digits. Why aren't there evidence for many different prototype limb and digit combos that may have been evolved that were superseded eventually into 5 digits as all animals have. It seems that the genetics for 5 digits was there in the first place and thats all there was to have in the end.
 
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Well they dont actually know as yet. Until they can do research to see how these individual proteins are formed and what direction they come in they wont know. But just because they speculate that convergent evolution is the cause doesn't mean its true. What if they find they are exactly the same all the way through. That would either mean that each unrelated creature followed the exact same path in all things which is to much of a coincident. Or that there is something that each creature has in common that is already there.

Even when you look at two different courses happening independently they will still show some divergence here and there. They will be subject to their own individual circumstances they live in and it wont be exactly the same. The more it happens across larger groups of animals the harder it will be to believe. It may happen to a couple of animals here and there but not to a lot of animals often.

What about digits for at the end of a limb for all tetrapods. How did they all evolve a similar set of features for different creatures who live in different environments with different pressures. Each using their digits for different things such as climbing crawling walking, and grasping. Yet each evolved similar features of 5 digits on the end of a limb. Why not 3 digits or 7 digits. Why aren't there evidence for many different prototype limb and digit combos that may have been evolved that were superseded eventually into 5 digits as all animals have. It seems that the genetics for 5 digits was there in the first place and thats all there was to have in the end.
Common ancestry. From Wikipedia:
Wikipedia said:
The superclass Tetrapoda (Ancient Greek τετραπόδηs tetrapodēs, "four-footed"), or the tetrapods/ˈtɛtrəpɒd/, comprises the first four-limbed vertebrates and their descendants, including the living and extinct amphibians, reptiles, mammals, birds, and some extinct fish.
 
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What design? You haven't presented any evidence for design.
Yes I have but you haven’t paid attention to it.
The protein folds as platonic forms: new support for the pre-Darwinian conception of evolution by natural law.
“The folds are evidently determined by natural law, not natural selection, and are "lawful forms" in the Platonic and pre-Darwinian sense of the word, which are bound to occur everywhere in the universe where the same 20 amino acids are used for their construction.

http://www.ncbi.nlm.nih.gov/pubmed/12419661
Evidence Of Design In Bird Feathers And Avian Respiration
This paper explores the evidence for design in living systems.
http://www.witpress.com/elibrary/dne-volumes/4/2/399
DNA codes and information: formal structures and relational causes.
http://www.ncbi.nlm.nih.gov/pubmed/18465197

You still think evolution is random, don't you? This entire time you have learned nothing.
It is random as far as mutations are concerned. Selection can only work with what it’s given. Natural selection is only survival of the fittest which could mean many different things in different situations. It just weeds out the weak and unfavorable. It can’t create something completely different and better from that same group of animals. So it that sense it eliminates more than creates and what you are left with is still the same basic creature that was there before but without the weaker ones. There is more creative power given to evolution and natural selection then there actually is.

So are you saying that random mutations handed unrelated creatures the same mutated features at the same time to end up with the same results many times over. They would have had all sorts of chance and random situations going on with different creatures in different environments, changing environments, different times and different pressures. Natural selection is working within a random situation. It is going to be subject to all these different influences in each individual circumstance and therefore cannot be the same.


This has already been addressed. I showed you that one of your own sources disagreed with you, yet again. It's a common pattern: you post a link as "support," yet the paper you draw on for support explicitly contradicts your position.

The papers you cited provide examples of convergent evolution! Did you even read them? I doubt it. You probably copied and pasted the link from some creationist blog. That's the sort of "research" you do.
Of course I have read them. They are supporting and showing examples of convergent evolution because they are pro evolution. I am using pro evolution papers as supports because I can’t use religious ones. So of course it is going to support evolution and convergent evolution. If I use any evidence from creationist’s sites you will reject them straight away even if they may have good scientific evidence. So I have to rely on pro evolution papers that bring up questions about convergent evolution even though they try to make out its true.

But the papers don’t prove convergent evolution and the examples they use are speculations without any support. I just try and reason some truth and logic into them from other areas that show why what they say doesn’t make sense. As they have said in those same papers they won’t really know until they can find out the paths for the individual proteins sequences to evolve to determine what is or isn't convergent evolution.

It would also help to know how selection influences changes in the types of amino acids within the proteins that the genes code for. “The real test,” agrees Parker, “is to go into the most convergent genes and start elucidating their functions directly.”
http://www.nature.com/news/convergent-evolution-seen-in-hundreds-of-genes-1.13679

They even say convergent evolution should be very rare yet we are seeing it more and more. They are even finding more and more genes as well that are showing great similarities between unrelated animals which was unexpected. They are saying they are surprised and astonished it is happening. So they are acknowledging that it doesn’t happen that much in the first place. It may not happen that much at all for all we know.

Yet with all these new discoveries showing more and more convergence we are now to believe it isn’t so rare after all. It could be so common now that we can predict evolution from it just like it has patterns of design. So they are chopping and changing things to suit the story and trying to explain away the large amount of design we see in life. The papers don’t empirically prove that convergent evolution is true, they just hypothesize it happens and skew the evidence to suit the theory because they already believe that it happens.
Instances of convergent evolution of locomotory patterns that quantitatively agree with the mechanically optimal solution are very rare.

We've been over this before: they are surprised by the extent of it. They aren't surprised that it happens at all; they expect it to happen.
Yes they are surprised, and amazed at the extent of it and even to the point of astonishment. Considering that this is suppose to be so rare and it is happening so often and is being discovered to happen more and more it’s a wonder they are astonished. Considering that they once only thought it happened anatomically they are now astonished that it also happens so often molecularly. It turns out that convergent phenotypic similarity is often based upon convergent genetic similarity. Yet evolution isn’t supposed to be that directed.

Accumulating studies on this topic have reported surprising cases of convergent evolution at the molecular level, ranging from gene families being recurrently recruited to identical amino acid replacements in distant lineages.
http://www.ncbi.nlm.nih.gov/pubmed/20685006
In other words, as the paper explains, convergent phenotypic traits occur due to convergent genetic evolution which supposedly results from a strongly biased potential for a given phenotypic change as a consequence of mutations in different genes. Neo-Darwinian evolution isn't supposed to be goal-directed, but some force is causing the same sequences at the genetic level to appear independently over and over again. In an undesigned world, this is extremely unlikely.

So even though the paper doesn’t support any purpose behind evolution their language that there is an inclination towards beneficial evolution is similar to design or having more coincidence than naturalistic processes that has no purpose.

"Convergent recruitment of the same gene lineage from multigene families affords an ideal system for studying the predisposition of particular genes for a given novel function."

We predict that, compared to the other members of the gene family, a recurrently recruited gene lineage will generally have a catalytic activity and an expression pattern closer to those needed for the novel reaction compared to other members of the same gene family.

Convergent recruitment suggest that only a few genes have the potential to create a specific phenotypic change"
http://www.ncbi.nlm.nih.gov/pubmed/20685006
The paper also talks about functional genetic pathways to useful phenotypes are limited and rare and there is a lot of risk and costs to fitness involved. So if they are acknowledging the pathways are so hard and it’s so rare to make and find these new genes sequences in the first place. Then how does convergent evolution do it over and over and over again.

A better explanation would be that the genetics for this were already there. There is far more available ability in the genome of animals where they can draw upon genetic material by switching on and off genes. The vast non coding section of DNA has more function and has the ability to build new features or transform existing features which are all interconnected with the existing ones. We will have to wait to find out through more sequencing of the genomes as to how this all works.
What Junk DNA? It’s an Operating System
The paper adds to a growing body of knowledge establishing a considerable role for this material in the regulation of gene expression
http://www.genengnews.com/insight-and-intelligence/what-junk-dna-it-s-an-operating-system/77899872/
Your interpretation is consistently out of step with the work you are citing. You say that they "have absolutely no evidence for it," even while posting links to studies that provide examples of convergent evolution! Loudmouth is right: it's difficult to penetrate this level of denial.
I am saying that there is no definite support for it. It is only stated and the reasoning is derived form a belief that evolution is true in the first place. The examples of convergent evolution are not proof of convergent evolution. You seem to think because they say its so that its true. You have to have the data to prove that and that data isn’t convincingly there yet.

Read what I wrote in context please. That comment was in response to a particular paragraph in which you claim "common design."
Why not, if an ape is an ape and a human is a human then this is saying that they each were made as they are and are separate unique creatures but have a common blueprint for life. Just like car designs where you will use a similar plan and not use a completely different one for each model. It makes sense to repeat the basic plan but with adjustments for each model.

You've been caught selectively quoting from papers in the past.
Such as. I quote a lot of stuff. If you think I have then it must be true. But as you can see I give a pretty comprehensive reply so there is a lot more then just selective quotes. As far as I know I explained what the papers are saying as far as I understand. If I quote something that is significant that supports what I say from those papers then that is exactly why I quoted it and that is exactly why the paper has stated it. You just don’t like what it says so you shoot the massager.
 
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Archaeopteryx

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Yes I have but you haven’t paid attention to it.
The protein folds as platonic forms: new support for the pre-Darwinian conception of evolution by natural law.
“The folds are evidently determined by natural law, not natural selection, and are "lawful forms" in the Platonic and pre-Darwinian sense of the word, which are bound to occur everywhere in the universe where the same 20 amino acids are used for their construction.

http://www.ncbi.nlm.nih.gov/pubmed/12419661
Evidence Of Design In Bird Feathers And Avian Respiration
This paper explores the evidence for design in living systems.
http://www.witpress.com/elibrary/dne-volumes/4/2/399
DNA codes and information: formal structures and relational causes.
http://www.ncbi.nlm.nih.gov/pubmed/18465197
I'm not dealing with a gish gallop, steve. Either you explain how this constitutes good evidence for design or don't bother presenting it.
It is random as far as mutations are concerned. Selection can only work with what it’s given. Natural selection is only survival of the fittest which could mean many different things in different situations. It just weeds out the weak and unfavorable. It can’t create something completely different and better from that same group of animals. So it that sense it eliminates more than creates and what you are left with is still the same basic creature that was there before but without the weaker ones. There is more creative power given to evolution and natural selection then there actually is.
Define "weaker." I'm not convinced you know what you're talking about.
So are you saying that random mutations handed unrelated creatures the same mutated features at the same time to end up with the same results many times over. They would have had all sorts of chance and random situations going on with different creatures in different environments, changing environments, different times and different pressures.
What do you mean by "unrelated creatures"? Common ancestry entails that they are not unrelated.
Natural selection is working within a random situation. It is going to be subject to all these different influences in each individual circumstance and therefore cannot be the same.
This is inaccurate. This website explains why:
University of California Museum of Paleontology said:
The genetic variation that occurs in a population because of mutation is random — but selection acts on that variation in a very non-random way: genetic variants that aid survival and reproduction are much more likely to become common than variants that don't. Natural selection is NOT random!
Of course I have read them. They are supporting and showing examples of convergent evolution because they are pro evolution. I am using pro evolution papers as supports because I can’t use religious ones. So of course it is going to support evolution and convergent evolution. If I use any evidence from creationist’s sites you will reject them straight away even if they may have good scientific evidence. So I have to rely on pro evolution papers that bring up questions about convergent evolution even though they try to make out its true.
In other words, you're shooting yourself in the foot.
But the papers don’t prove convergent evolution and the examples they use are speculations without any support.
Says you.
They even say convergent evolution should be very rare yet we are seeing it more and more. They are even finding more and more genes as well that are showing great similarities between unrelated animals which was unexpected. They are saying they are surprised and astonished it is happening. So they are acknowledging that it doesn’t happen that much in the first place. It may not happen that much at all for all we know.
I've already addressed this.
Yet with all these new discoveries showing more and more convergence we are now to believe it isn’t so rare after all. It could be so common now that we can predict evolution from it just like it has patterns of design.
Why are you assuming that we shouldn't be able to predict it if it is the result of evolution? The only way this makes sense is if you assume that evolution is inherently random. Yet you say you don't assume that.
So they are chopping and changing things to suit the story and trying to explain away the large amount of design we see in life.
Again, what design? You've presented no argument for how design would better account for these findings.

The papers don’t empirically prove that convergent evolution is true, they just hypothesize it happens and skew the evidence to suit the theory because they already believe that it happens.
Says you.
Yes they are surprised, and amazed at the extent of it and even to the point of astonishment. Considering that this is suppose to be so rare and it is happening so often and is being discovered to happen more and more it’s a wonder they are astonished.
I've already addressed this. Go back, re-read.
Considering that they once only thought it happened anatomically they are now astonished that it also happens so often molecularly.
This is inaccurate. They expected it to happen on a molecular level. What they were "astonished" by was the extent to which is evident on a molecular level.
It turns out that convergent phenotypic similarity is often based upon convergent genetic similarity. Yet evolution isn’t supposed to be that directed.
What do you mean that evolution isn't supposed to be "that directed"?
In other words, as the paper explains, convergent phenotypic traits occur due to convergent genetic evolution which supposedly results from a strongly biased potential for a given phenotypic change as a consequence of mutations in different genes. Neo-Darwinian evolution isn't supposed to be goal-directed, but some force is causing the same sequences at the genetic level to appear independently over and over again. In an undesigned world, this is extremely unlikely
1. Where is the evidence that the process is "goal-directed" at all?
2. The "force" causing these sequences to appear independently has a name - it's called convergent evolution!
I am saying that there is no definite support for it. It is only stated and the reasoning is derived form a belief that evolution is true in the first place. The examples of convergent evolution are not proof of convergent evolution. You seem to think because they say its so that its true. You have to have the data to prove that and that data isn’t convincingly there yet.
That's your poorly substantiated opinion.
Why not, if an ape is an ape and a human is a human then this is saying that they each were made as they are and are separate unique creatures but have a common blueprint for life. Just like car designs where you will use a similar plan and not use a completely different one for each model. It makes sense to repeat the basic plan but with adjustments for each model.
You mean like... evolution! Descent with modification!
 
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Let there be light: Evolution of complex bioluminescent traits may be predictable
The genetic underpinnings of complex traits in cephalopods may in fact be predictable because they evolved in the same way in two distinct species of squid.
"They are much more similar than we expected in terms of their genetic makeup," Oakley said. "Usually when two complicated organs evolve separately we would expect them to take very different evolutionary paths to arrive where they are today. The unexpectedly similar genetic makeup demonstrates that these two squid species took very similar paths to evolve these traits.
More specifically, the researchers demonstrated that bioluminescent organs originated repeatedly during squid evolution and then showed that the global gene expression profiles (transcriptomes) underlying those organs are strikingly -- even predictably -- similar.
http://www.sciencedaily.com/releases/2014/10/141021135020.htm
Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid
http://www.pnas.org/content/111/44/E4736.abstract

Show us the DNA comparisons. Show us how these genes are more similar at the DNA sequence level than predicted by evolution.

As it turns out, they already did that work. When they compare the DNA sequences, they get the expected phylogeny:

"Our phylogenetic analyses significantly support separate evolutionary origins (phylogenetic nonhomology) of bioluminescent organs in two distantly related squid species."
http://www.pnas.org/content/111/44/E4736.full

That is what convergent evolution is, arriving at analogous solutions through different evolutionary pathways. That is exactly what happened in this case, and it is supported by the DNA sequence data.

This is why I ask for examples. When you actually cite them, they turn out to say the opposite of what you claim.

So the similarities go down to the molecular level which are exactly the same across large sections of the genes to the point of being predictable across many species.

As already shown, no they don't. The only comparison that matters is the DNA sequence data. The pattern of gene expression is not DNA sequence data. Trascriptome is not the same as DNA sequence.

The same keeps happening with the other references you use.
 
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I'm not dealing with a gish gallop, steve. Either you explain how this constitutes good evidence for design or don't bother presenting it.
How is this Gish gallop. I have posted three links that deal with different aspects of ID. One talks about how biologists use to see life in natural terms before Darwin came along. Organic life has natural structures such as in the atom which will occur throughout the universe. (This is known as Laws of form). This was eventually abandoned for the theory of evolution and natural selection. But studies that have been done have found that the basic proteins folds do have natural forms and conform to a set of construction rules similar to those that govern the atom for example. As the paper states
" The folds are evidently determined by natural law, not natural selection, and are "lawful forms" in the Platonic and pre-Darwinian sense of the word, which are bound to occur everywhere in the universe where the same 20 amino acids are used for their construction.


They go on to show that these basic structures in our proteins are common and work similar to how the laws of physics work. It has implications about how proteins are formed and how life is formed. But because there are set forms that work to these set rules it also implies that there is design in the basic structure of life and a naturalistic process couldn't have found these by chance.

The paper on design in birds wings and their respiratory systems talks mainly about irreducible complexity. How bird wings are made and how they have separate parts that lock together. A barb type hook with interlocks with another hook. They are designed with left and right sided mechanisms which are separate and then interlock together. This needed to be made at the same time as they are perfectly matching. It also talks about how the transition from a reptile respiratory system to the bird system cannot be possible as it would involve none functioning transitions.

The transition would involve a diaphragmatic hernia in taxa transitional between theropods and birds. Such a debilitating condition would have immediately compromised the entire pulmonary ventilatory apparatus and seems unlikely to have been of any selective advantage."


The last paper talks about genetic coding and how it is a complex coding system. So each paper if you read them give support for a different aspect of the intelligent design.

Define "weaker." I'm not convinced you know what you're talking about.
I used the words weaker and unfavorable. So if your looking for my understanding of what natural selection may determine as being selected use both these words. You can probably add a few others to that as well because who knows. There is no clear criteria but to say only those who can and will go on to reproduce. It doesn't necessarily mean they are weaker but I use this work because evolution often uses the term survival of the fittest. But what is regarded as unfit or weak in one situation isn't in another.

A white rabbit in snow may have an advantage but it doesn't make the dark ones weaker. Just more vulnerable to predators. But that is for those years where snow falls. If there is a climate change than any advantage is quickly lost and the opposite becomes true. Possibly within a few generations so it doesn't incur any real advantage either way over time if it doesn't last. The favorable white rabbits will only become fixed if they survive anyway. If they are killed by a falling log the favorable trait may never be picked up as well. So its not that straight forward.
But this doesn't prove that the rabbit will eventually become something else. We are just talking about hair color.

But mutations are mostly a cost to fitness so if anything its the mutated animals that will be weeded out. A so called beneficial mutation is very rare and can still come with a cost. Any changes to the genes is normally seen as a cost in the long run and tests have found that overall there is a gradual loss of fitness. Most mutations are so minor they are not selected and will have a small negative effect. Even the neutral ones.

What do you mean by "unrelated creatures"? Common ancestry entails that they are not unrelated.
Normally for convergent evolution they are talking about distantly related or unrelated as they are not on the same evolution branches but on distant branches. So they have gone down different evolutionary paths earlier on according to evolution. So the similar traits they have had to have evolved independently due to their individual circumstances and natural selection. So its hard to believe that they could end up not only with the same physical traits or features but the same genes for basically a random naturalistic process. Thats why evolution is now claiming that it can be predictable and that there are some set guidelines that make it work. Its like claiming aspects of design when its not design.

This is inaccurate. This website explains why:
I think the website is saying what I have just said but in a different way. It doesn't have a goal. It doesn't necessarily produce the same results in different situations. A creature may not catch the prey. So it isn't always the same. Yet some want to say it has direction now and is predictable and there are only certain mutations and selected forms that will end up being chosen and thats why we see convergent evolution..


I will have to finish the rest later as its getting late. Bye for now Steve.

[/quote][/QUOTE]
 
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Loudmouth

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How is this Gish gallop. I have posted three links that deal with different aspects of ID. One talks about how biologists use to see life in natural terms before Darwin came along. Organic life has natural structures such as in the atom which will occur throughout the universe. (This is known as Laws of form). This was eventually abandoned for the theory of evolution and natural selection. But studies that have been done have found that the basic proteins folds do have natural forms and conform to a set of construction rules similar to those that govern the atom for example. As the paper states
" The folds are evidently determined by natural law, not natural selection, and are "lawful forms" in the Platonic and pre-Darwinian sense of the word, which are bound to occur everywhere in the universe where the same 20 amino acids are used for their construction.


They go on to show that these basic structures in our proteins are common and work similar to how the laws of physics work. It has implications about how proteins are formed and how life is formed. But because there are set forms that work to these set rules it also implies that there is design in the basic structure of life and a naturalistic process couldn't have found these by chance.


Different protein sequences will produce different protein folds. It is the sequences that are selected for.

This is a really, really simple concept, and you try so hard to get it wrong at every turn.
 
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SkyWriting

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What is the limiting factor? Are scales the same as feathers or different?

"Very little dinosaur skin fossilized, so what we know about sauropod skin comes from impressions made when it pressed into mud or sand that then hardened and turned to stone. These impressions show that sauropod skin had small bumps and scales that didn't overlap. Some sauropods had bony growths in the skin called osteoderms. But no sauropods had hair or feathers.

On the Surface
What would it have felt like to touch a dinosaur? Sauropod skin was almost certainly dry and warm. Because dinosaurs had no sweat glands in their skin, they didn't perspire. They were covered with small scales that protected the dinosaur's body and prevented evaporation of water from inside. These scales were bumpy and knobby and did not overlap like snake scales do."
http://www.amnh.org/exhibitions/pas...largest-dinosaurs/outside-mamenchisaurus/skin
 
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Foxhole87

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In reading many, many pages, Steve's strategy seems to be:

1. Make a claim about a complex biological process.
2. Dig around some journals (reputable and not reputable, it doesn't matter) and lift a few sentences from an article to validate the claim.
3. When confronted by others who read the entire article entry and provide the context where the article addresses Steve's concern and the author (in consideration of the entire text of the article, obviously) has the opposite conclusion Steve drew from the material, Steve states his personal incredulity of the author's conclusion, despite (IIRC) Steve admitting that he isn't an expert on their respective field.

Don't we usually lean on the conclusions of experts in a discussion where we ourselves aren't experts? I mean, it is one thing to find a handful of fringe and otherwise credible "experts" pushing an idea contrary to the "mainstream", but to quote an expert and mask their conclusion with your own seems to be the very opposite of honest discourse.
 
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bhsmte

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In reading many, many pages, Steve's strategy seems to be:

1. Make a claim about how complex some biological process.
2. Dig around some journals (reputable and not reputable, it doesn't matter) and lift a few sentences from an article to validate the claim.
3. When confronted by others who read the entire article entry and provide the context where the article addresses Steve's concern and the author (in consideration of the entire text of the article, obviously) has the opposite conclusion Steve drew from the material, Steve states his personal incredulity of the author's conclusion, despite (IIRC) Steve admitting that he isn't an expert on their respective field.

Don't we usually lean on the conclusions of experts in a discussion where we ourselves aren't experts? I mean, it is one thing to find a handful of fringe and otherwise credible "experts" pushing an idea contrary to the "mainstream", but to quote an expert and mask their conclusion with your own seems to be the very opposite of honest discourse.

Steve has been corrected and refuted over and over again by many on these boards.

He simply ignores and keeps repeating the same things.
 
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