Showing posts sorted by relevance for query ranganathan. Sort by date Show all posts
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February 25, 2008

Babu Ranganathan Fuming About Fossilized Bat Ancestor

Less than two weeks ago, I wrote an entry for this blog about Onychonycteris finneyi, an animal that lived approximately 52,000,000 years ago and is clearly from a lineage ancestral to modern bats. I concluded with the following prediction:

I'm waiting, of course, for the inevitable statement of denial from a Creationist group. Something like, "It's not an intermediate form because it had wings, so it's just another bat!" Someone out there has gotta do it, after all. Must keep those gaps open to give the creator/intelligent designer someplace to live.
I'm happy to report this morning that my hypothesis was adequately predictive, as confirmed by none other than Babu Ranganathan in his latest bizarre screed, appearing as usual in the Creationist-run Seoul Times of Korea. He comes so close to what I wrote at one point, in fact, that some readers may conclude that I must have written his column myself. While I can't guarantee that Ranganathan didn't take a cue from my article, I promise that I don't do his writing for him. Here's some of what that babbling baboon Babu had to say:
Fossil Doesn't Support Bat Evolution!

Author Babu Ranganathan contemplates how to best tell his next lieHere we go again! Recently evolutionists have discovered a fossil of a bat which which they claim indicates that bats learned to fly before they developed the ability of echolocation (i.e. sonar ability).

The fossil they claim is found in rock strata two million years older than the previously thought oldest bat fossil. Some argue that this particular fossil shows no evidence of having sonar ability, but they believed it was able to fly so they have concluded that this fossil is some transitional form.
Babu is, of course, leaving out a lot of information here, which is pretty much par for the course for Creationist liars who take for granted that their audience are idiots. In the article I wrote about O. finneyi, I give a list of several (though not all) of the traits demonstrating an intermediate position for this organism. Among these are wing topology and forelimb-to-hindlimb length ratio. This isn't a question of "believing" the animal could fly; it possesses traits that demonstrate that it was capable of powered flight (e.g., a keeled breastbone) and, moreover, allow a determination of the manner in which it flew. It can be said with confidence, for example, that it wasn't a very good flyer and spent a good deal of its airborne time gliding. That's not convenient for Ranganathan's position, however, so he lies by omission and deprives his readers of the full facts, counting on their only looking at sources he points them to. Note that nowhere in his article does Ranganathan ever tell his readers where to find the original work on this fossil, to get the full story and decide for themselves. For all of his moaning about presenting full information, it's certainly not something you will ever see this baboon do in one of his banal, dishonest screeds.
The fact is that this fossil bat is complete. There is nothing it lacks even from what modern bats possess. What about bat echolocation (sonar ability)? Not even all living bats today possess echolation, some do and some don't. And even the assumption that this newly discovered fossil bat did not possess echolocation is an assumption. Just because the fossil bat appeared to possess a small cochlea does not necessarily mean it did not possess echolocation. Small does not always mean less advanced. Even we humans have produced ever more smaller computer chips, which are more advanced than the bigger ones! ...
Again, the baboon leads off with a lie; O. finneyi has a number of traits we don't see in modern bats, including a wing structure that isn't seen in any bats present in the world day. It has extra claws, it has a different shape, and it has a different ratio to the hindlimbs. The bones in the skull are quite different, too. Of course the fossil itself is complete; does Ranganathan also think that when demographers say that an average family has 2.5 children that there are mothers giving birth only to the left sides of offspring out there? We wouldn't expect to see bats without heads flying about at any point in evolutionary time, either. Bats that don't possess echolocation today, such a flying foxes, are diurnal and so possess other traits that aren't present in nocturnal bats, all of which use echolocation. Moreover, the very few bats that don't possess echolocation also aren't insectivores; O. finneyi was, and it was likely not a night hunter. Furthermore, the cochlea plays a pivotal role in all animals that possess echolocation, whether we're talking about bats or dolphins. Without special adaptations of the cochlea in some manner, echolocation isn't possible. In the case of every bat capable of echolocation today, that capability is reliant upon enlargement of the cochlea along with some other accompanying traits, none of which are seen in O. finneyi.

Making the statement that the cochlea is smaller but somehow more "advanced" and that it can be compared to a manufactured microchip does nothing but show how little Ranganathan understands about the system of which he speaks. There's nothing to suggest that O. finneyi's cochlea had any unique structures that would have enabled it to be useful for echolocation, and we certainly don't see such unique arrangements in any of today's bats. Ranganathan is just making unsupported statements, making up yet another story that, while convenient for his misguided argument, have no basis whatsoever in reality.
Millions of people are taught in schools and textbooks all over the world that the fossil record furnishes scientific proof of evolution. But, where are there fossils of half-evolved dinosaurs or other creatures?

The fossil record contains fossils of only complete and fully-formed species. There are no fossils of partially-evolved species to indicate that a gradual process of evolution ever occurred...
This is true once one redefines what "partially-evolved" means in a sort of front-loading argument. In Ranganathan's strange world of pseudoscience, the only acceptable evidence for evolution in the fossil record would occur if we could somehow demonstrate that ancestral species had a goal from the outset and knew what their descendants would look like. This is a requirement only of Creationist baboons, though. Evolutionary biology doesn't require it. We can only say that a trait is "partially-evolved" (a term that would only be used colloquially; there's no such thing as a partial trait for reasons I'll explain momentarily) when we look at a primitive trait in comparison to a derived one. In other words, it's a relative term, not an absolute as Ranganathan demands. This is just a baboon-constructed strawman; he's made up his own definitions for "trait" and "evolution" and then proceeds to disprove the meanings he has himself dreamed up.
...all of the fossils, with their fancy scientific names, that have been used to support human evolution have eventually been found to be either hoaxes, non-human, or human, but not both human and non-human...
Of course no human ancestor is both human and non-human; those are contradictory terms. Either a fossil organism is or isn't human; it can't be both at the same time by definition. It may possess some number of traits that are the same ones found in humans and based on the number of character states the organism has in common with humans one might say that it is more or less human-like, but whether that organism has 50% or 75% of the same characters, it isn't human unless we're looking specifically at a Homo sapiens. Ranganathan here has added more evidence that he hasn't a clue what he's complaining about.
Even if evolution takes millions and millions of years, we should still be able to see some stages of its process. But, we simply don't observe any partially-evolved fish, frogs, lizards, birds, dogs, cats among us. Every species of plant and animal is complete and fully-formed...
By this, again, Ranaganathan is saying that he expects to see halves of frogs leaping about, dogs that have no legs, etc. We do, of course, see numerous organisms in the fossil record (including O. finneyi) that possess some traits that are like those of modern animals and some that are like other extinct species or even like those we see in organisms that are descended from common ancestors. That we don't see any extinct species among us today is, again, a matter of definition. If it was "among us," it wouldn't be an extinct organism. Any given species is fully-formed because it's impossible to have a species that isn't fully-formed, but that doesn't make one species with a complete set of characters the same as another species with a complete set of characters. That Ranganathan even comes up with nonsense like this shows us that he not only has no concept of what the words "trait" and "species" mean in the sense that they're used in biology, but that he's getting pretty desperate, too.
A lizard with half-evolved legs and wings can't run or fly away from its predators. How would it survive? Why would it be preserved by natural selection? Imagine such a species surviving in such a miserable state over many millions of years waiting for fully-formed wings to evolve!
"Half-evolved" is meaningless; every character state is fully evolved. There's no such thing as "half-evolved legs;" there are legs that have characters that are different from other legs, but they are themselves still fully-evolved. Ranganathan is trying to conjure up some image of lizards with half-legs. But here's the interesting thing; there are lizards in the world today with no legs, and they survive just fine. There are also snakes that have vestigial legs, such as pythons and boas, and they survive in the wild. Again, Ranganathan isn't going to let facts and accuracy get in the way of convincing ignorant people to abandon any attempt to educate themselves. For this reason alone, Ranganathan is the lowest snake of them all.
Some evolutionists cite the fossil of an ancient bird known to have claws as an example of a transitional link. However, there are two species of birds living today in South America that have claws on their wings, but even evolutionists today do not claim that these birds are transitional links from a reptilian ancestry. These claws are complete, as everything else on the birds...
The baboon is making reference here to a bird called the Hoatzin, a South American ratite-like bird in which a pair of claws is present on the wing of chicks. We don't claim that they're transitional because there's no evidence that the species itself is a reptile that possesses bird-like traits, and the transition in characters from reptile-ancestor to bird-ancestor has already happened. The claws, by the way, are not permanent; they disappear as the bird matures. To the point, then: what would an incomplete claw be? Either something is or is not a claw; it may have certain proportions, a distinctive shape, but a claw is a claw. It's impossible for there to be an incomplete one. Ranganathan goes on with this ridiculous line of reasoning in the next excerpt as well.
Recently it was thought they had discovered fossils of dinosaurs with feathers until they found out that the so-called feathers were really scales which only had the appearance of feathers. Scientists theorize the scales took upon a feather-like appreance during some brief stage of decomposition before being fossilized. Even if they were feathers, this still wouldn't be any kind of evidence to support macro-evolution unless they can show a series of fossils having part-scale/part-feather structures as evidence that the scales had really evolved into feathers...
Um, no, this is just made-up. If something has characters common to both feathers and scales, then it is an example of evolution from scale to feather. This baboon is trying to say that because paleontologists have discovered something that fils in a gap in the fossil record, they've now created a new gap on either side of the old one. The criteria that Ranganathan is trying to set up here can never be satisfied by anything that could ever be found because no matter how many transitional stages we find between two characterss, we would always have to find two more to satisfy this insane requirement. The only way that this could ever be met would be if every organism that ever lived had been fossilized and subsequently discovered. I don't mean representative fossils from every species, either; I mean literally every single thing that had ever lived. We know that doesn't happen and we wouldn't expect that it would happen. Again, Ranganathan is just exploiting the ignorance of his readers to generate support for his anti-reason crusade. For what Ranganathan is saying about traits to be true, we would have to live in some alternate universe where extinctions never occurred and character states could never be discretely apportioned.

Why is this? Simply put, a character state can never be "partial." Even when we're talking about quantitative characters, either a state exists or it doesn't. You can't have half of a character state. Ranganathan has used claws as an example, so I'll use it, too.

To begin with, we have to define what we mean by "claw" in order to say anything useful about it. I'll use a simple definition here: a claw is an accessory structure at the tip of a vertebrate's digit composed of a protein and supplied by at least one blood vessel (a nail, by contrast, doesn't contain blood vessels and we must distinguish between the two characters in order to say something about either one). We can now look at the variety of this character called "claw" and look at some of the character states in which we find the character itself.

For example, the character "claw" can contain a number of different shapes. It could be curved or straight, for example. "Curved" and "straight" are each a character state. It might possess or lack pigmentation, so we assign the states "pigmented" or "non-pigmented." It might have a blunt or sharp tip. It might be supplied with two or four blood vessels. It might be retractable or non-retractable. Each of these choices represents two distinct character states.

Now we can look at all of the claws in some group of organisms (taxa) that all possess the character. We find one taxon that has curved, sharp, retractable, non-pigmented claws (most cats) and we find another that has curved, sharp, non-pigmented, non-retractable claws (cheetahs). We find a third that has straight, pigmented, sharp, non-retractable claws (for purposes of this example, bears). All three taxa have claws, although the claws are different. Based upon the states present in the character that all three taxa share, we can arrange them in a sort of diagram (a phylogenetic tree). Because the claws of cheetahs have more in common than with "most cats" than they do with those of bears (they share more character states), we say that cheetahs are more closely related to most cats than they are to bears, meaning that the taxa "cheetah" and "most cats" have a more recent common ancestor than either of the two taxa have with bears. At no point do we have "partially evolved" claws, just a character called "claw" that can have a number of different states. When we have a larger number of characters, each possibly present in a number of different states, what we then have are a number of different lines of evidence that will either support or contradict the phylogeny we constructed based on the single character.

At no point is there something that's "partly a claw." If it doesn't have a blood vessel, it's no longer a claw but a nail. Based on our definition, either something is or is not a claw. Now, we could look at claws that have gradually lost that blood vessel in a progression, if we find any, and so perhaps see how claws changed into nails, but the characters themselves are absolute. A claw isn't a partially-evolved nail; the structure meets the criteria for one or the other character. There's nothing partial about this, except if we already have the progression in front of us; then we can make a relative statement and say that some particular claw, or series of claws, is more like a nail than some other examples of the same character with a different set of traits. We never have half of a claw or half of a nail.

Ranaganathan lacks even a basic operative understanding of how this works. He's just making up stories, like a child who doesn't understand where lightning comes from and so thinks that angels are at war with one another. It's nothing but blather.
...the problem for evolutionists is that all the traits which they cite are complete and fully-formed. And evolutionists are not consistent. The duck-billed platypus, for example, has traits belonging to both mammals and birds but even evolutionists won't go so far as to claim that the duck-billed platypus is a transitional link between birds and mammals!
Well, yeah... because the platypus doesn't have any traits its shares with birds. The platypus egg and the platypus bill are not like those we see in birds; they're more like characters found in reptiles. The platypus also has characters found in mammals, such as fur and milk production. We thus say that the platypus is a descendant of a lineage that arose during some transition from an ancestor that feel somewhere along the line between reptiles and mammals. The platypus itself isn't transitional, because as far as well know the species didn't evolve into placental mammals. One of its ancestors, however, may have been common to both modern monotremes (egg-laying mammals) and placental mammals — perhaps. Does Ranganathan ever know what he's talking about?
In fact, it is precisely because of these problems that more and more modern evolutionists are adopting a new theory known as Punctuated Equilibrium which says that plant and animal species evolved suddenly from one kind to another and that is why we don't see evidence of partially-evolved species in the fossil record. Of course, we have to accept their word on blind faith because there is no way to prove or disprove what they are saying. These evolutionists claim that something like massive bombardment of radiation resulted in mega mutations in species which produced "instantaneous" changes from one life form to another...
Again, the baboon is making up stories; his understanding of punctuated equilibrium would appear to come entirely from comic books. What punctuated equilibrium actually says is that evolution generally progresses very slowly, but during certain crises (sudden environmental changes that can include everything from diseases to volcanic eruptions that block out the sun), large-scale extinctions of some taxa occur that open up previously occupied niches. Populations of other species, particularly generalists with large degrees of allelic diversity, will then adapt in rapid radiations to fill those niches, generating new species. This is a rather typical Creationist canard, of course. Punctuated equilibrium hypotheses are not contradictions of classical evolutionary theory but an addition to them that agrees with what we find happening in particular circumstances. Ranganathan might be very good company for telling exciting stories around a campfire, but he surely doesn't know anything about biology.
The evidence from genetics supports only the possibility for microevolution (or horizontal) evolution within biological "kinds" such as the varieties of dogs, cats, horses, cows, etc., but not macroevolution (or vertical) evolution which would involve variations across biological "kinds"), especially from simpler kinds to more complex ones (i.e. from fish to human). Even if a new species develops but there are no new genes or new traits, but only new variations of already existing genes and traits, then there still is no macro-evolution...

Variations across biological kinds such as humans evolving from ape-like creatures and apes, in turn, evolving from dog-like creatures and so on, as Darwinian evolutionary theory teaches, are not genetically possible. Although the chemicals to make entirely new genes exist in all varieties of plant and animal kinds, the DNA or genetic program that exists in each plant or animal kind will only direct those chemicals into making more of the same genes or variations of the same genes but not entirely new genes...
This is such utter nonsense that I only include it to demonstrate the extremes to which Ranganathan is willing to go in order to get people to believe the lies he's telling. What the heck are "the chemicals to make new genes," anyhow? The only chemical needed to make new genes is good old deoxyribonucleic acid. A "new gene" just means that an old one gets copied twice during replication, is reproduced in subsequent generations, and because there are two copies of the same gene now present, one of them is under relaxed selection because it isn't absolutely necessary for the organism possessing two copies to survive. That gene under relaxed selection can take on some new function because it's free to change; repair mechanisms don't have to do a very good job of "fixing" it and the organism will still survive. It might become a new functional gene, it might become a functionless pseudogene, it might become a controller that doesn't code for a product but acts as a binding site for an enzyme that's needed for a nearby gene to be transcribed more efficiently... it could have any number of fates. There's nothing here that precludes small changes that add up to very large ones given sufficient time. Note that the duplicated gene itself is a new trait, which Ranganathan misses entirely because he doesn't understand that "trait" can refer to both morphology (phenotype) and molecular characteristics (e.g., genotype). He doesn't understand much of what he blathers about at all, it would seem. Hardly surprising, but for him to try to speak with authority on the subject demonstrates nothing more than a very large ego and very little integrity. This distinction between micro- and macro-evolution is one that only exists in his head. It's a matter of scale generated by additions, not some absolute measurement.
The common belief among evolutionists is that random mutations in the genetic code produced by random environmental forces such as radiation, over time, will produce entirely new genetic sequences or genes for entirely new traits which natural selection can act upon resulting in entirely new biological kinds or forms of life . Evolutionists consider mutations to be a form of natural genetic engineering.
The baboon is certainly hung up on radiation, isn't he? I think it's because it's the only source of mutations that he still remembers from the two or three introductory biology classes he took many years ago. So, what is an "entirely new genetic sequence," then? Is the sequence ATTAGCA entirely different from ATTTAGCA? Think about it for a moment.

Yes, they are entirely different if we look at what will be produced from them. The first one will produce a polypeptide three amino acids long when translated. The second one will only produce a single amino acid, because that extra thymine inserted in the fourth position creates a frame-shift resulting in a stop codon. Now what if ATTAGCA gets changed to ATCAGCA; are these two entirely different sequences? From the point of view of a product, probably not; the change in the first triplet happens in the third codon and, due to something called the degeneracy of codons, the same amino acid translated from ATT, isoleucine is translated from ATC.

Nor is an environmental change or radiation required for this to happen; mistakes sometimes occur in code copying during replication that have nothing at all to do with the environment. In fact, such errors are probably more common than mutations generated by bursts of radiation... unless, of course, you're Magneto or the Incredible Hulk, I suppose. The stuff about "natural genetic engineering" is pure nonsense; there's no engineering involved. Mutations in nature are random; I'd hate to think there was anyone engineering anything at all but merely making random changes. Engineering, as far as I know, is quite a deliberate process.
However, the very nature of mutations precludes such a possibility. Mutations are accidental changes in the sequential structure of the genetic code caused by various random environmental forces such as radiation and toxic chemicals...
Comic-book baboon strikes again. Some mutations are caused by environmental factors, some by replicative errors because polymerases aren't perfect. Ranganathan is trying for a bit of dramatic license here, I suppose.
Almost all true mutations are harmful, which is what one would normally expect from accidents. Even if a good mutation occurred for every good one there will be thousands of harmful ones with the net result over time being disastrous for the species...
Not even close. The vast majority of mutations are neither harmful nor beneficial, and even most deleterious mutations turn out to be very mildly so. About as many mutations are extremely harmful as are extremely beneficial; aside from this tiny proportion, the rest fall somewhere in the middle. In order for a mutation to have any effect at all, it has to meet a number of specific requirements. Does the mutation code for a different product? If it does, does this occur in a location that matters to the functioning of the product (e.g., an active site in an enzyme)? Does the mutation even occur in a coding region? Vast stretches of DNA don't actually code for anything, after all, and those are free to mutate and mutate and mutate without ever doing anything in terms of organismal fitness. In fact, when we look at molecular characters to reconstruct evolutionary history, we often use both coding and non-coding regions to fill in the picture precisely because conserved coding regions aren't informative enough on their own due to natural selection, whereas non-coding regions can contain so much variation between taxa that we can't use them alone to connect the dots, either. The combination of both sorts of sequences gives us useful information, however. One commonly-used sequence, the rDNA internally transcribe spacer (ITS) is practically in every molecular analysis these days — because it can mutate without causing species to become extinct!
Just because the laws of science can explain how life and the universe operate and work doesn't mean there is no Maker. Would it be rational to believe that there's no designer behind airplanes because the laws of science can explain how airplanes operate and work?..
The first sentence is true; there could be a "maker." There could also be a giant chicken living on Triton that sings arias every day at 3:45 PM Greenwich mean time and has a fondness for burritos. We don't have any evidence for the existence of either one, though. Perhaps Ranganathan will go into a laboratory some day and provide some? Just one scrap of evidence? Because until there's evidence for something, it's not part of science. End of story right there; if someone wants to include supernatural causation, they're going to have to show how it affects natural phenomena. If natural phenomena are being so influenced, then that fact can be demonstrated. If they aren't, then whether or not a "maker" exists is entirely immaterial to science, which studies natural phenomena such as biology. Whether the "maker" doesn't exist at all or exists but doesn't do anything to living things doesn't matter, either; we don't need to include the study of a "maker" who doesn't do anything to affect the diversification of living things over time in evolutionary biology anymore than we have to study the influence of licorice-flavored candy in it. Neither would be germane to the topic at hand.

The airplane bit is simply category error. We know that airplanes are designed because there are people who make their living designing them. We don't have to look for evidence that airplanes are designed because we already have it. We don't have any evidence that living things are designed or that they're anything like airplanes, for that matter. On the other hand, after Ranganathan's latest column we now have additional evidence that if you lock a baboon in a room with a typewriter for a sufficient amount of time, he'll produce a big pile of something hot, smelly and brown. Perhaps that can be Ranganathan's contribution to science — though I don't know that anybody doubted it in the first place.

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October 09, 2007

How They Lie: Babu Ranganathan and "The Genetic Boundaries of Evolution"

In case you haven't already run across Babu Ranganathan before, a little background seems in order. He's another liar for DA LAWD who writes the same articles over and over about why evolution can't possibly be correct and humanity must have come into being via an act of special creation. While he frequently gets quoted in such nuthouses as The Conservative Voice, the publication that most frequently gives voice to his ravings is South Korea's The Seoul Times. His most recent column there was published on October 6 and is entitled The Genetic Boundaries of Evolution and, as usual, he makes a variety of absolutely incorrect claims about evolutionary biology. One of these oft-repeated claims is the following:

In any case,there is no scientific evidence whatsoever that the environment has the ability to generate entirely new genes which would program for the development of entirely new traits in species.
In a literal sense, this is true. The environment doesn't "generate" genes, and nobody claims that it does. New genes, according to modern theory, do in fact arise from old ones. As far as there being no evidence of this happening, that's entirely untrue. There is, in fact, a great deal of evidence.

For example, one of the most common means by which new genes, and hence new traits, can be created is by a duplication—degeneration—divergence scheme. This is actually fairly simple to understand. The process by which DNA is replicated isn't perfect, and it has occurred that one of the errors results in an extra copy of a gene (duplication). When this happens, selective pressure on one copy of the gene is relaxed. With two copies present, one becomes redundant, allowing for the accumulation of mutations without causing harm to the species in question (degeneration). This frequently results in pseudogenization; the extra copy of the gene simply becomes nonfunctional for some extent of time. We can still see, via molecular analysis, the origin of the pseudogene, but it doesn't code for a useful product. On the other hand, both duplicate genes and pseudogenes can accumulate mutations that eventually code for some new product, with the end result being a new trait (divergence). That's where new genes come from, and we know that this process occurs because a few genes are so highly conserved that when duplication does occur, the degeneration phase never proceeds to any great extent and the species in question simply winds up with multiple, practically identical copies. The classic example of this are the Hox genes, functionally crucial segments of DNA that determine the basic layout of an organism's body. These have been duplicated several times in the course of evolutionary history such that primitive Agnatha (e.g., hagfish) have a single copy and mammals have four sets. Because we have the capability to analyze these genes at the molecular level, we can now chart when these duplications took place and put together a phylogeny:


Source: Monteiro AS, Ferrier DEK. Hox genes are not always Colinear. Int J Biol Sci 2006; 2:95-103. http://www.biolsci.org/v02p0095.htm


Suffice to say, Ranganathan either doesn't know what he's talking about or is intentionally misrepresenting the state of scientific knowledge on this point. This is typical of Creationists, of course, but Ranganathan's is an argument that has now been debunked so many times now that it's hard to imagine that he was unaware of how wrong it was when he made it.

In fact, we have so much evidence of new genes (and hence new traits) arising that a new study has just been published that specifically explores which of these genes came first, which ones are the duplicates, and how the new genes arose in terms of evolutionary history:
Ancestral reconstruction of segmental duplications reveals punctuated cores of human genome evolution

Human segmental duplications are hotspots for nonallelic homologous recombination leading to genomic disorders, copy-number polymorphisms and gene and transcript innovations. The complex structure and history of these regions have precluded a global evolutionary analysis. Combining a modified A-Bruijn graph algorithm with comparative genome sequence data, we identify the origin of 4,692 ancestral duplication loci and use these to cluster 437 complex duplication blocks into 24 distinct groups. The sequence-divergence data between ancestral-derivative pairs and a comparison with the chimpanzee and macaque genome support a 'punctuated' model of evolution. Our analysis reveals that human segmental duplications are frequently organized around 'core' duplicons, which are enriched for transcripts and, in some cases, encode primate-specific genes undergoing positive selection. We hypothesize that the rapid expansion and fixation of some intrachromosomal segmental duplications during great-ape evolution has been due to the selective advantage conferred by these genes and transcripts embedded within these core duplications.
That's a mouthful of jargon, I know, but a more English-friendly explanation of what's going is available via press release here:
Researchers have answered a similarly vexing (and far more relevant) genomic question: Which of the thousands of long stretches of repeated DNA in the human genome came first? And which are the duplicates?

The answers, published online by Nature Genetics on October 7, 2007, provide the first evolutionary history of the duplications in the human genome that are partly responsible for both disease and recent genetic innovations. This work marks a significant step toward a better understanding of what genomic changes paved the way for modern humans, when these duplications occurred and what the associated costs are – in terms of susceptibility to disease-causing genetic mutations.
What should be abundantly apparent is that before a study like the one above could ever have been undertaken there must have been a tremendous amount of evidence. What science does is to look at evidence and propose ways by which it becomes coherent. Under a Creationist ideology, there is simply no way that the large amounts of evidence for the arising of new traits, always accompanied by changes to the genome, make any sense at all. It would leave us only with guesses and vague allusions to the unknowable will of an undetectable designer about whom one cannot even ask questions, let alone come up with answers. Unless, of course, Ranganathan wishes to assert that the differences between fins, insect legs and mammalian limbs don't represent different traits in the first place. That would require a degree of blind idiocy of which I would like to think that even the most hardcore Creationist is incapable. Anyone who asserts that there are no differences between hagfish and hippos is due as much ridicule as can be mustered against him for reasons that should be obvious to anyone, whether or not they understand molecular biology even the slightest bit.

Of course, my favorite piece of Creationist articles like Ranaganathan's latest hunk of ignorance is when they give credentials that are supposed to impress us:
The above opinion piece is written by Mr. Babu G. Ranganathan (Email: bgrnathan@yahoo.com), religion and science writer who was recognized in the 24th edition of Marquis Who's Who in The East. He holds a B.A. with concentrations in theology and biology.
An undergraduate degree with a "concentration" in biology? I'm not sure exactly what that means, but my undergraduate degree has a "concentration" in chemistry that resulted in my having a minor in the subject — but I certainly don't fancy myself to know as much about chemistry as someone with a doctorate in the subject. My undergraduate degree was in biology, and I can say with all honesty that I've learned almost as much about the subject in one month of work toward a doctoral degree as I did in three of the four years of undergraduate work. Even an undergraduate degree only means that one is conversant with the basics; it's a huge field. Ranganathan's "concentration" likely means he took three or four biology courses many years ago. As far as Who's Who goes, what does inclusion in that esteemed tome mean, exactly?
Though the number of entries in Who's Who in America has grown to over 100,000 in recent years, the publication has tried hard to convey the impression that standards for inclusion have remained the same. Being accepted into Who's Who is "an honor that only a select few ever enjoy," the company boasts. Every person in the book is subjected to "painstaking selection, research, rigorous nominee review, and thorough editorial review." And who does the painstaking nominating and selecting? Marquis implies that members of the publication's Board of Advisors play a large role in the nomination process, but they don't seem to know much about it.

"The reality is, I don't do anything," says John Fox Sullivan, publisher of National Journal and a member of the board for the last decade. "There is almost no communication back and forth. Once a year I get a piece of paper asking me if I want to recommend someone. It's not as if there's an annual retreat somewhere where we sit around and decide who makes it this year. Or if there is, I haven't been invited..."

...There's not a word about qualitative or quantitative criteria. Does everyone who applies get into Who's Who? "I'll say a majority," admitted Canning [the publication's editorial director from 1992 to 1997], "but I can't get any more detailed than that. I think the majority are appropriate for one of our regional or topical publications. I think I need to leave it at that." In other words, just about everyone who tries hard enough will get his name in print...

Donald Ray Grubbs of Portland, Texas, is proof that persistence pays off. From 1973 to 1986, Donald Ray worked as a pipe fitter and welder for the Pipefitters Local 195 in Beaumont. Now an employee of Longview Inspection, a company that assesses the structural integrity of industrial sites, Grubbs has been appearing in various Who's Who publications for a decade or so...

...As most of those listed in the book know, entries in Who's Who are mostly self-reported and largely unchecked, making it the ideal place to tidy up an uneven educational or work history...

In the mid-1980s, Joe Queenan, then at American Business magazine, decided to test the Who's Who fact-checking apparatus. Queenan submitted an application on behalf of a nonexistent magazine editor named R.C. Webster. Webster, Queenan wrote, had graduated with a master of fine arts degree from F&M T&A University and received doctorates from Quaker State University and the University of Ron (Ron, France) before moving on to edit such magazines as American Business, Latin-American Business, The Business of Business, Your Business and Our Business Monthly. Webster and his wife, the former Trish Abigail Boogen, had children named Cassette, Lothar, Skippy and Boo-Boo. A member of the Association of Men and the Bureau of People, he listed his hobby as "managing editing." Who's Who printed most of the entry in its following edition...

Indeed, the first clue that Who's Who is a vanity publication is the "Thoughts on My Life" feature that appears beneath some entries. This is the part where biographees are invited to reflect upon their achievements using their own words. It's all pretty amusing, and it must be profitable, too, because Marquis recently decided to expand the concept. For $150, those listed in Who's Who in America can now write up to 200 words about themselves and their work...

Source

Babu Ranganathan's greatest accomplishment is appearing in a vanity book that also features non-existent magazine editors and pipe welders. He likely even paid for the privilege. What an honor. Clearly, the man is a scientific genius who has made inestimable contributions to the betterment of makind and solved all sorts of ticklish problems... right?

Well, no. Like many who seek to spearhead Creationist nonsense, he's largely a self-serving self-promoter. Even a clown like William Dembski has more credibility than Babu Ranganathan, which essentially means that if you stand next to the man his credibility void will suck the legitimacy out of you like a great black hole. What, then, to be said of listening to the arguments of such an individual?

I'm left wondering why any newspaper, or anyone else, gives this know-nothing a soapbox from which to preach his damaging nonsense. There is good reason to believe that this kind of faith-based deception does real harm, in fact. I'm sure one could draw a straight line between the efforts of folks like Babu and the belief that one is so beloved by his invisible friend in the sky that one can traipse off to Afghanistan to convert the Taliban to Evangelical Christianity. Ranganathan, I think, isn't so much a scientist as he is a vector for brain damage.

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November 21, 2007

The Seoul Times: Krazy Korean Kreationists Misrepresent NOVA's "Judgment Day"

One of the ways in which I keep track of various Creationist nonsense is by maintaining a Google News account, and one of the sources that pops up most frequently on that account is The Seoul Times, a newspaper published in South Korea. As some may already be aware, South Korea has been a fertile ground for the efforts of Evangelistic fundamentalists, resulting recently in a Korean mission to Afghanistan. These missionaries were captured by the Taliban and had to be ransomed by their government. Long story short, stupidity isn't an inherent property of American fundamentalism but an emergent property of fundamentalism the world over.

Whenever The Seoul Times shows up in my newsreader, it's because they've published some article or column supporting Creationism. Typically, this will have been written by Babu Ranganathan, a fanatical science-denier whom this newspaper appears to have given a carte blanche forum to publish his ignorant screeds. In just the past month (since October 24), they've published at least four such articles by Ranganathan and, while I haven't kept count, I think they've published at least two dozen of his pieces in the last year. I've previously written a thorough debunking of Ranganathan's nonsense, and those interested can have a read at their leisure.

This morning, however, The Seoul Times deigned to publish a letter to the editor by Samuel Wiggenton that was appropriately critical of Ranganathan. In his letter, Mr. Wiggenton mentions the recent NOVA documentary, Judgment Day: Intelligent Design on Trial:

A recent two-hour Nova documentary called "Judgement Day: Intelligent Design on Trial" accurately detailed the events of the case. I would recommend it to anyone interested in intelligent design movement. The link is posted below.

http://www.pbs.org/wgbh/nova/id/program.html

I am extremely disappointed that The Seoul Times would publish this kind of writing.

Strikingly, The Seoul Times did something very misleading based on Wiggenton's mention of the documentary; they ran a photograph on the page that they seem to be claiming is from Jugment Day, but it isn't. Instead, the photo appears to be taken from a program run on The Discovery Channel, and it depicts two men standing in a room with guns on the walls. The image included with this entry is a screen capture I made of the page including Wiggenton's letter and the image in question, which is captioned "Recent two-hour Nova documentary Judgement Day — Intelligent Design on Trial."

Considering the track record that this newspaper has had, particularly in its seeming love affair with Babu Ranganathan, I find it quite likely that this isn't a mistake but some sort of commentary about their view of Judgment Day, the Kitzmiller v. Dover case, those who speak out in favor of evolution in general, or perhaps all three. Is this to be taken as a threatening image, or is this something to cast aspersions upon those outside the Creationist "cdesign proponentsist" fold? Clearly, the image isn't from where the caption claims it to have originated.

I have tried before to find out who owns The Seoul Times and why they have the slant they have when it comes to issues of science and religion. I've been unsuccessful in those efforts, though. I think it would be interesting to find out more about who owns this paper and why their editorial policy is what it is. I suspect, though I cannot demonstrate, that it will turn out that some religious concern has a large stake in the publication.

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November 19, 2008

Transitional Fossils: This Time, It's a Turtle

As much as I'm loathe to use a term like "transitional" in describing a fossil. After all, nearly all fossils are, in fact, transitional. Still, I'll use the word in this case because it should make the importance of this latest in a long series of "missing link" fossils clear to those many Creationists who insist that no such fossil evidence exists for evolution.

This time, researchers have found the fossilized remains of a 164 million year old turtle in Scotland. The turtle is the earliest known aquatic form but still bears many of the traits of completely terrestrial species. Dubbed Eileanchelys waldmani, the new species fills the "gap" between the heavy-boned terrestrial turtles known from Triassic Period and the aquatic forms known from the Jurassic.

Ancient turtle discovered on Skye
By James Morgan, Science reporter, BBC News


The 164 million-year-old reptile fossils were found on a beach in southern Skye, off the UK's west coast.

The new species forms a missing link between ancient terrestrial turtles and their modern, aquatic descendants.

The discovery of Eileanchelys waldmani... is reported in the Royal Society journals.

The turtles were found embedded in a block of rock at the bay of Cladach a'Ghlinne, on the Strathaird peninsula.

It contained four well-preserved turtle skeletons, and the remnants of at least two others...

The historic specimens are now being housed in the National Museums Scotland, Edinburgh.

They were uncovered by a team from London's Natural History Museum and University College London (UCL)...

"It is part of a new revision we are having about turtle evolution."

The new species helps bridge a 65 million-year gap in the story - between the terrestrial "basal" turtles, from the late Triassic, and the aquatic "crown-group" turtles of the late Jurassic.

The former were "heavy-built" land-dwellers, with skulls which were "more reptilian", says Mr Anquetin.

The latter were lighter, and closer in appearance to the aquatic, freshwater turtles we know today.

What happened in between was a mystery, until very recently.

In the last two years, fossils of three new turtle species, all dating to to the Middle Jurassic, have been discovered in Russia, Argentina, and now Scotland...

On the outside, E. waldmani would resemble a modern freshwater turtle - "like the ones you can buy in the pet shop", says Mr Anquetin...

"The differences are on the inside - in the cranial anatomy. They are small differences but very important. There is no other turtle like this one..."

Their findings are reported in the journal Proceedings of the Royal Society B: Biological Sciences.

"This new turtle is very exciting", said Dr Walter Joyce, an expert in turtle evolution, formerly of the Peabody Museum of Natural History, Yale University.

"Keep in mind that a 65 million year gap used to exist in the fossil record between the oldest known turtles from the Late Triassic and basically modern turtles in the Late Jurassic.

"The new turtle is really quite spectacular in preservation, considering that several complete skeletons are preserved, instead of the usual scrap that has to be pieced together..."
That God in the gaps must be very skinny to keep up with all of the shrinking going on. We get a new "transitional" fossil every few months. Dinosaur feathers, 52 million year old bat ancestors, fish/quadruped intermediates, frogamanders... the alleged gaps keep closing, the supposedly missing links keep turning up, and the paleontological evidence supporting various evolutionary theories mounts regularly.

Now, the real question: how long will it take antiscientific ignoramus Babu Ranganathan to come up with another angrily hand-waving spew denying that Eileanchelys exists?

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