vestigial proof

By the forester

How ludicrously they dangled up there — two little wires suspending them beneath the spine, about midway between ribs and tail. Grayish-white, cylindrical; small batons frozen in midair.

Leg bones. In a whale.

I remember gaping at the overhead skeleton as my fourth grade class filed through the Smithsonian. I wondered if whales even knew they had those bones. Could they feel them? I marveled at the vastness of time, the relentless march that expelled fish onto land and drew them back again as mammals.

It almost seemed too incredible — but there they were, leg remnants in a whale, plain as day. Two hundred million years could do anything. (They could even draw a whale out of a deer the size of a fox!)

Back in class we heard more examples of vestigiality. Evolution was sloppy: organs and behaviors important for survival at one point in time might not be later on, leaving behind some unused (or at least less-used) pieces. Ostrich wings. Cavefish eyes. The human appendix, coccyx. Junk DNA. It would take whales millions of years more to shed the last vestiges of their leg bones — unless, of course, they put them to some other use. (Wrapped in blubbery flesh as they were, away from other bone or even muscle, that was doubtful.)

I was a good little science student. I understood vestigial organs well.

Much later, in my mid-twenties, I thought through what I’d learned about evolution through public school and college, and came up with questions. The universe — scratch that, the human mind was extraordinarily complex; how could such order arise from unconscious forces? I flirted with the idea of function by design, which of course implied a Designer.

But there was that issue of vestigiality: organs without function. Would a Designer give humans a tailbone, an appendix? Would a Designer write gobbledygook into DNA?

Then again, what if scientists were wrong?

Nah, scientists investigate everything. If the appendix served a function we’d know about it.

Imagine my surprise, then, when this article appeared in October 2007:

CNN: Purpose of appendix believed found

Some scientists think they have figured out the real job of the troublesome and seemingly useless appendix: It produces and protects good germs for your gut.

That’s the theory from surgeons and immunologists at Duke University Medical School, published online in a scientific journal this week.

The function of the appendix seems related to the massive amount of bacteria populating the human digestive system, according to the study in the Journal of Theoretical Biology. There are more bacteria than human cells in the typical body. Most are good and help digest food.

But sometimes the flora of bacteria in the intestines die or are purged. Diseases such as cholera or amoebic dysentery would clear the gut of useful bacteria. The appendix’s job is to reboot the digestive system in that case.

The appendix “acts as a good safe house for bacteria,” said Duke surgery professor Bill Parker, a study co-author. Its location _ just below the normal one-way flow of food and germs in the large intestine in a sort of gut cul-de-sac — helps support the theory, he said.

Also, the worm-shaped organ outgrowth acts like a bacteria factory, cultivating the good germs, Parker said.

Reading this, I thought immediately of junk DNA. “They’re going to figure it out,” I told my wife. “I need to blog about it, make my prediction public. Evolution’s supposed to be this great predictor, but it’s throwing them off. A Designer wouldn’t write junk code. It must serve some kind of purpose. Maybe it’s structural, it holds DNA together somehow; maybe it helps in replication. I don’t know. Whatever it is, I need to go on record!”

Four days later my second son was born, and in the ensuing crazyness of adjusting to two-child parenthood, I let that prediction languish in my to-blog list.

Too bad. Within three and a half months (January 2008) came this article:

Science Daily: Tiny genetic differences have huge consequences

A study led by McGill University researchers has demonstrated that small differences between individuals at the DNA level can lead to dramatic differences in the way genes produce proteins. These, in turn, are responsible for the vast array of differences in physical characteristics between individuals.

This study solves in part the mystery of how a relatively small number of differences within DNA protein coding sequences could be responsible for the enormous variety of phenotypic differences between individuals. It had previously been shown that individual differences reside in simple, relatively small variations in the DNA sequence called single nucleotide polymorphisms (SNPs, often pronounced “snips”), which exist primarily in the “junk code” of the DNA not previously known to have any profound genetic effect.

“There are many SNPs,” explained Dr. Jacek Majewski of McGill University. “If you add them all together, you’d expect that two individuals would differ at more than a million of those positions. So we have a million or more small differences that distinguish you and me, and yet it would be very hard to explain all the phenotypic differences in the way we look, grow, and behave just by the handful of these protein coding differences.”

Majewski and his colleagues have demonstrated that the natural processing of messenger RNA (mRNA), via a process called splicing, is genetically controlled by these SNPs. The SNPs in certain individuals lead to changes in splicing and result in the production of drastically altered forms of the protein. These out-of-proportion consequences may lead to the development of genetic diseases such as cystic fibrosis and Type 1 diabetes.

Junk DNA isn’t rubbish at all. Junk DNA shapes protein production, and that, in turn, shapes who you are.

Long touted as proof of evolution, vestigiality is beginning to collapse. And despite insistence on evolution’s predictive power, as a concept vestigiality tempts scientists to overlook possible function. “No use researching that,” they dismiss, “it has little function — it’s vestigial!” Such an attitude is no less responsible for thwarting scientific inquiry than the roundly-criticized creationist mantra “God did it.”

The appendix was vestigial until Duke researchers discovered its purpose. Junk DNA was vestigial until McGill researchers discovered its purpose.

More and more, the supposedly sloppy process of evolution is morphing into a tight economy of design. Function exists where it was once thought lacking, demonstrating that where vestigiality is concerned, intelligent design has more predictive power than evolution. We only need to look.

And there’s the rub: Darwinists who point at vestigiality as proof of evolution may not want to look.

But now is not the time to skimp on inquiry. No more easy outs: going forward, the concept of vestigiality should be treated as temporarily void so we can take a vigorous, open-minded look at organs and behaviors once considered obsolete. In all cases we must investigate function with the conviction that it will be found — and acknowledge the possibility of our own shortcomings if it is not.

We need to reopen cases long gone cold. Coccyx. Ostrich wings. Even cavefish eyes — which may indeed be vestigial (even creationists recognize variation and speciation of animal kinds since creation), but you never know until you look.

I missed going on record with my prediction about junk DNA. Fair enough; I get no credit for that one. But now I’ll make a new prediction, one even more radical.

Those little whale bones?

They serve a purpose.

That purpose will be found. But not by deductive Darwinism.

No, it’s going to take a little old-fashioned inductive science.

19 Responses to “vestigial proof”

  1. the forester Says:

    P.S. A small suggestion: no more naming things for their presumed lack of function.

    Appendix (tacked on at the end, an afterthought). Junk DNA. Yes, it’s funny, but it’s also misleading.

    We might as well keep scribbling “Here Be Dragons” on our maps.

  2. the forester Says:

    CNN: Purpose of appendix believed found (5 Oct 07)

    Some scientists think they have figured out the real job of the troublesome and seemingly useless appendix: It produces and protects good germs for your gut.

    That’s the theory from surgeons and immunologists at Duke University Medical School, published online in a scientific journal this week.

    For generations the appendix has been dismissed as superfluous. Doctors figured it had no function. Surgeons removed them routinely. People live fine without them.

    And when infected the appendix can turn deadly. It gets inflamed quickly and some people die if it isn’t removed in time. Two years ago, 321,000 Americans were hospitalized with appendicitis, according to the Centers for Disease Control and Prevention.

    The function of the appendix seems related to the massive amount of bacteria populating the human digestive system, according to the study in the Journal of Theoretical Biology. There are more bacteria than human cells in the typical body. Most are good and help digest food.

    But sometimes the flora of bacteria in the intestines die or are purged. Diseases such as cholera or amoebic dysentery would clear the gut of useful bacteria. The appendix’s job is to reboot the digestive system in that case.

    The appendix “acts as a good safe house for bacteria,” said Duke surgery professor Bill Parker, a study co-author. Its location _ just below the normal one-way flow of food and germs in the large intestine in a sort of gut cul-de-sac — helps support the theory, he said.

    Also, the worm-shaped organ outgrowth acts like a bacteria factory, cultivating the good germs, Parker said.

    That use is not needed in a modern industrialized society, Parker said.

    If a person’s gut flora dies, it can usually be repopulated easily with germs they pick up from other people, he said. But before dense populations in modern times and during epidemics of cholera that affected a whole region, it wasn’t as easy to grow back that bacteria and the appendix came in handy.

    In less developed countries, where the appendix may be still useful, the rate of appendicitis is lower than in the U.S., other studies have shown, Parker said.

    He said the appendix may be another case of an overly hygienic society triggering an overreaction by the body’s immune system.

    Even though the appendix seems to have a function, people should still have them removed when they are inflamed because it could turn deadly, Parker said. About 300 to 400 Americans die of appendicitis each year, according to the CDC.

    Five scientists not connected with the research said that the Duke theory makes sense and raises interesting questions.

    The idea “seems by far the most likely” explanation for the function of the appendix, said Brandeis University biochemistry professor Douglas Theobald. “It makes evolutionary sense.”

    The theory led Gary Huffnagle, a University of Michigan internal medicine and microbiology professor, to wonder about the value of another body part that is often yanked: “I’ll bet eventually we’ll find the same sort of thing with the tonsils.”

  3. the forester Says:

    Science Daily: Tiny genetic differences have huge consequences (20 Jan 08)

    A study led by McGill University researchers has demonstrated that small differences between individuals at the DNA level can lead to dramatic differences in the way genes produce proteins. These, in turn, are responsible for the vast array of differences in physical characteristics between individuals.

    This study solves in part the mystery of how a relatively small number of differences within DNA protein coding sequences could be responsible for the enormous variety of phenotypic differences between individuals. It had previously been shown that individual differences reside in simple, relatively small variations in the DNA sequence called single nucleotide polymorphisms (SNPs, often pronounced “snips”), which exist primarily in the “junk code” of the DNA not previously known to have any profound genetic effect.

    “There are many SNPs,” explained Dr. Jacek Majewski of McGill University. “If you add them all together, you’d expect that two individuals would differ at more than a million of those positions. So we have a million or more small differences that distinguish you and me, and yet it would be very hard to explain all the phenotypic differences in the way we look, grow, and behave just by the handful of these protein coding differences.”

    Majewski and his colleagues have demonstrated that the natural processing of messenger RNA (mRNA), via a process called splicing, is genetically controlled by these SNPs. The SNPs in certain individuals lead to changes in splicing and result in the production of drastically altered forms of the protein. These out-of-proportion consequences may lead to the development of genetic diseases such as cystic fibrosis and Type 1 diabetes.

    The study, part of the Genome Regulators in Disease (GRID) Project funded by Genome Canada and Genome Quebec, was led by Dr. Jacek Majewski of McGill University’s Department of Human Genetics and the McGill University and Genome Quebec Innovation Centre, and first-authored by his research associate Dr. Tony Kwan. It was published January 13 in the journal Nature Genetics.

    The study was originally initiated by Dr. Tom Hudson, former director of the McGill University and Genome Quebec Innovation Centre, and drew upon the data collected by the vast HapMap (Haplotype Map) Project, a global comparative map of the human genome, which Hudson and his colleagues were instrumental in completing.

  4. the forester Says:

    Science Daily: Whales descended from tiny deer-like ancestors (21 Dec 07)

    Hans Thewissen, Ph.D., Professor of the Department of Anatomy, Northeastern Ohio Universities Colleges of Medicine and Pharmacy (NEOUCOM), has announced the discovery of the missing link between whales and their four-footed ancestors.

    Scientists since Darwin have known that whales are mammals whose ancestors walked on land, and in the past 15 years, researchers led by Dr. Thewissen have identified a series of intermediate fossils documenting whale’s dramatic evolutionary transition from land to sea. But one step was missing: The identity of the land ancestors of whales.

    Now Dr. Thewissen and colleagues discovered of the skeleton of Indohyus, an approximately 48-million-year-old even-toed ungulate from the Kashmir region of India, as the closest known fossil relative of whales. Dr. Thewissen’s team studied a layer of mudstone with hundreds of bones of Indohyus, a fox-sized mammal that looked something like a miniature deer.

    Dr. Thewissen and colleagues report key similarities between whales and Indohyus in the skull and ear that show their close family relationship.

    Thewissen and colleagues also explored how Indohyus lived, and came up with some surprising results. They determined that the bones of the skeleton of Indohyus had a thick outside layer, much thicker than in other mammals of this size. This characteristic is often seen in mammals that are slow aquatic waders, such as the hippopotamus today. Indohyus’ aquatic habits are further confirmed by the chemical composition of their teeth, which revealed oxygen isotope ratios similar to those of aquatic animals. All this implies that Indohyus spent much of its time in water.

    Dr. Walt Horton, Vice-President for Research at NEOUCOM commented: “This remarkable research demonstrates that the study of the structure and composition of fossil bones can tell us about how the skeleton of whales and, by extension, other mammals like humans, interacts with the environment and changes over time.”

    Before, it was often assumed that whales descended from carnivorous terrestrial ancestors, and some researchers speculated that whales became aquatic to feed on ocean-dwelling fish. According to Dr. Thewissen, “Clearly, this is not the case, Indohyus is a plant-eater, and already is aquatic. Apparently the dietary shift to hunting animals (as modern whales do) came later than the habitat shift to the water.”

    Although it may seem strange to think of a tiny, deer-like animal living in water, one modern mousedeer offers something of an analogue to the ancient Indohyus, even though it is not closely related to whales: The African Mousedeer (also called Chevrotain) is known to jump in water when in danger, and move around at the bottom (for a movie showing this go to YouTube and watch ‘Eagle vs. Water Chevrotain’).

    Whale evolution is one of the best documented examples of mammal evolution, and Dr. Thewissen’s discovery adds a significant new piece to the puzzle.

    “Not much was known about the earliest whales, until the early nineties,” Dr. Thewissen said. “But then, a number of discoveries came in quick succession.”

  5. Howard Says:

    Great post. I am now slightly more educated on this subject than when I started reading. You always do that for me.

    God Bless

    Howard

  6. the forester Says:

    Obviously vestigiality is still dear to some, evidenced by this collection of 13 supposedly useless body parts in humans published in March 2008:

    CBS4: Useless body parts

    Listed: subclavius muscle, appendix, male nipples, wisdom teeth, ear muscles, neck rib, “third” eyelid, palmaris muscle, body hair, erector pili (goose bumps), plantaris muscle, coccyx, thirteenth rib.

  7. RubeRad Says:

    This will relate to another of your favorite subjects:

    Your comment stirred my memory, and I did some digging and found this Discover Magazine articlette from 2004. Since there is no attribution, the text at CBS4.com was plagiarized. (Who knows, maybe the same author did both, but if there’s no attribution to the original published-for-money version, isn’t it still plagiarism?)

  8. sportychick Says:

    Expelled moviegoers will enjoy this post as it faults the scientific community for being too narrow minded to be truly scientific about their pursuits to understand the world.

  9. asad123 Says:

    My mom insists that she never believed that the appendix was merely vestigial. As she puts it, “that much lymphoid tissue has to have a purpose.”

  10. RubeRad Says:

    What fond memories that brings back for me of childhood! Aren’t moms great?

    :-)

  11. David Says:

    Hmmmm… I have known about the structural portions of DNA for years upon years – from back when I was working at NCBI. I don’t think that there is anything new there – just something that got picked up by Main Stream media after a peer reviewed article got published (long time in development). They probably took the concept just a hair farther. Here is a link to an article that I did the illustrations for: http://www.nbii.gov/portal/server.pt?open=512&objID=401&&PageID=560&mode=2&in_hi_userid=2&cached=true
    It talks about the structure of non-coding portions of DNA. It does not specifically address all of the concepts put forward in the latest studies, but helps to illustrate the point that all of the elements serve a purpose. The concept of Junk DNA? Where did that come from? Or at least, where did the concept that it does nothing come from? Perhaps you inferred it from the name? Here is what Wikipedia has to say about junk DNA:

    In molecular biology, “junk” DNA is a provisional label for the portions of the DNA sequence of a chromosome or a genome for which no function has yet been identified. Scientists fully expect to find functions for some, but definitely not all, of this provisionally classified collection. About 80-90% of the human genome has been designated as “junk”, including most sequences within introns and most intergenic DNA. While much of this sequence may be an evolutionary artifact that serves no present-day purpose, some is believed to function in ways that are not currently understood. (From http://en.wikipedia.org/wiki/Junk_DNA)

    In terms of the bones in the whales body serving a purpose – of course it is likely that something will be found. The phrase “When all you have is a hammer, everything starts looking like a nail” comes to mind. Organisms are scrappy and they are opportunistic. Bones that evolution drives to be shrunken so that the whale body is more streamlined, might millions of years later come in handy as a “massage bump” that winds up increasing the chances of reproductive success during intercourse by increasing blood flow in the female. The better it works, the more the trait is passed. It gets amplified when it appears in areas specific to male genes – it doesn’t matter as much in the female genes, and starts to diminish. Set the timer for a couple of million years, and ‘all of a sudden’ male whales have ‘coitus stimulating prongs’, and females have none. Neither has legs, vestigial or otherwise. Poof.
    I heard a story about a mathematician who spent his entire career studying the Egyptian pyramids, because he realized they understood Pi long before the Greeks. He wanted to discover what else they knew, perhaps some of which had not yet been discovered. Shortly before his death, someone demonstrated that the Egyptians used wheels to make their measurements. Pi came from the wheels by chance, not by purpose. I worry that you are coming to some rather strange assumptions as well about a designer creating everything for a purpose. Why can’t the designer have done the initial design, which included the capability of his creations to improve themselves? It seems to me that would indicate a far more intelligent designer. It is one thing to make a coffee pot. I can make a darned coffee pot. It is quite another thing to make a coffee pot that will keep improving itself based on variables that did not exist at the time it was created. Or to make a coffee pot that can become a tea kettle when the need arises, and a Quaxo-lagiunard when the need arises. What the heck is a Quaxo-lagiunard? I don’t know either. But if someone could make a coffee pot that would become one, at the exact instant that it became necessary to have one… Good lord. Seriously. Good Lord.

  12. David Says:

    Okay, I just need to take credit for a little bit of prognostication I did in my earlier post. Some evil scientists have found fossils of a snake with two legs in lebanon. Details of the story can be found here: http://news.bbc.co.uk/2/hi/science/nature/7339508.stm

    As for the prognostication? Look at the last two paragraphs:

    To modern eyes, it may seem strange to think of a snake with legs.

    But look at some of the more primitive modern snakes, such as boas and pythons, and you’ll see evidence of their legged ancestry – tiny “spurs” sited near their ends, which today are used as grippers during sex.

  13. the forester Says:

    David: Okay, I just need to take credit for a little bit of prognostication I did in my earlier post.

    Is it prognostication if you’re just reading my del.icio.us bookmarks?

  14. RubeRad Says:

    It is one thing to make a coffee pot. I can make a darned coffee pot. It is quite another thing to make a coffee pot that will keep improving itself based on variables that did not exist at the time it was created.

    Reminds me of one of the best SciFi novels I ever read, The Mote in God’s Eye (or probably it was the sequel, The Gripping Hand), which had a small plot element involving a coffee maker that mysteriously improved “itself”…

  15. David Says:

    Having just read the circumcision of your son article and now this one, I can’t help but wonder, do you think the foreskin is vestigial?

  16. Ediacaran Says:

    Having just read the circumcision of your son article and now this one, I can’t help but wonder, do you think the foreskin is vestigial?

    Would you rather try to defend it as being “intelligently designed”? ;-)

  17. olga Says:

    We are beginning to understand that our knowledge of this world is very limited. We are also sensing that the design of everything that surrounds us in this life is more intelligent we could ever imagine. Indeed, function exists where it was once thought lacking. The functions of other puzzling objects could also be found then.
    There is no redundancy in Nature. All its elements exist in complete harmony. We cannot perceive this harmony du to our oppositeness to it. Instead of correcting the nature (routinely removing appendix), which ultimately brings suffering, we need to correct our own nature. We will then feel the harmony and the eternity existing outside of us
    Michael Laitman speaks about it in his article “To Feel the Harmony of Eternal Nature” http://www.laitman.com/2008/02/to-feel-the-harmony-of-eternal-nature/

  18. Ed Darrell Says:

    It’s interesting that some seem to think “vestigial” means “useless.” Where did you get that idea?

  19. the forester Says:

    Great to hear from you again, Ed!

    It’s interesting that some seem to think “vestigial” means “useless.” Where did you get that idea?

    Some people probably do equate vestigiality with uselessness. I don’t, which is why I included in the article these thoughts (emphasis added):

    Evolution was sloppy: organs and behaviors important for survival at one point in time might not be later on, leaving behind some unused (or at least less-used) pieces. Ostrich wings. Cavefish eyes. The human appendix, coccyx. Junk DNA. It would take whales millions of years more to shed the last vestiges of their leg bones — unless, of course, they put them to some other use. (Wrapped in blubbery flesh as they were, away from other bone or even muscle, that was doubtful.)

    Rereading this article (from a year ago!), I admit to conflating the terms function and purpose. Vestigiality doesn’t imply a total lack of function — only a loss/decrease of, or change from, original function. Darwinism does imply (in fact necessitates) a total lack of purpose. Were I to rewrite, I would distinguish these two terms by suggesting that when we discover cases of non-obvious function, we may in reality be validating the concept of purpose. Which of course is a suggestion you would dispute.

    But I do believe I indicated in the original article that vestigiality recognizes non-original function.

Leave a Reply