Moon Mysteries and the Lunarlogos Foundation
Suppose you are keenly interested in the topography of one of the moons, named Y6-9. Suppose also that the books you first select to read on the topic are popular works, written by “experts” who are “living legends.” As you read through the works, you find paragraphs here and there about how utterly decrepit Y6-9 is, and how this space body exemplifies eons of random events. The authors argue that we already knew all there was to know about that moon back in 1859, and that the evidence demonstrates either that God doesn’t exist or that the deity left the cosmos to itself after the Big Bang.

You find, however, that these books almost totally ignore the findings of the billion-dollar missions sent to the surface of Y6-9 since the 1960s. Indeed, there is next to nothing in them about Y6-9’s actual geology.

So you contact the Lunarlogos Foundation, a Christian group that promotes such books. You tell them that you have a few specific questions about the Y6-9 mission findings. The response you get is that because you are a layman, you would not be able to comprehend the details. Besides, the Lunarlogos folks say, the mainstream experts have spoken authoritatively about the subject and that should be enough for you. As a consolation, though, they send you a CD that has songs that are sung by one of their founding members.

The blue line indicates the distribution of SINEs along a 110-million base pair interval of rat chromosome 10. (From Fig. 9d of Ref. 1.)

Taxon-Specific Elements: The SINEs Aren’t The Same
Intriguing as this non-random distribution of repetitive elements may be, it gets even more interesting when one realizes that SINEs are specific to taxonomic groups. Each primate genome has distinct subfamilies of the Alu sequence. The mouse genome, on the other hand, has no Alus but it does have three unique SINE families called B1, B2, and B4. While mouse B1 shares some sequence similarity with Alu, it has no relationship to the B2 or B4 elements; the latter two are also unrelated to each other. What then about the rat SINEs along chromosome 10, which were depicted as a blue line? Well, the genome of the rat has one main SINE family called ID, for the “Identifier” sequence. The ID elements have nothing in common at the DNA sequence level with the mouse B1s, B2s, or B4s, and they are wholly dissimilar to Alus.

Hirsch insisted again and again that God must be understood as acting with complete freedom in the world, both as it is now and as it was in the process of creation. Accordingly, Hirsch was critical of the then-new Darwinian evolutionary theory. The history of creation was one in which God’s thoughts emerged and freely influenced the shapes of nature: “They are not the result of some force working blindly, but the work of One thinking Being, creating them with intention and purpose”

You can read more here.

In a rejoinder to Meyer, Darrel Falk defended Ayala and claimed although “a number of functional regions have been discovered within Alu sequences,” there “is no question that many Alu sequences really have no function.”

In my last blog, I showed that the vast majority of the genome is transcribed, either into protein-coding genes or into regulatory RNAs. The technical literature—some of which I cited in that blog—reports that the genome is an RNA-coding machine. Clearly, most DNA really does have function.

In this and subsequent posts, I will provide other sorts of evidence that so-called “junk DNA” is not junk at all, but functional.

Anyone who similarly doesn’t quite “get it” should read our friend and colleague Wesley J. Smith’s new and important book on the animal-rights movement, A Rat Is a Pig Is a Dog Is a Boy. If you follow conservative journalism, you’ve likely heard about the book from the contentious deliberation it has received in National Review and on NR’s website. This started with a review by speechwriter Matthew Scully, similarly a friend and a gifted polemicist. Scully is the vegetarian and champion of animals who, for the 2008 Republican convention, wrote the best speech ever given by that great white hunter, Governor Palin.

As a reviewer for Wesley Smith’s book, Matthew Scully was a surprising choice. Scully's own book, Dominion: The Power of Man, the Suffering of Animals, and the Call to Mercy, received a wounding review in The Weekly Standard some years back from none other than Wesley Smith and it comes in for criticism again in Smith’s book. I can’t understand NR’s decision to match these two valued friends of the magazine against each other. Matthew wrote, I am sorry to say, a distorting and unfair review of Wesley’s book, to which NR then let Wesley reply, generating additional discussion on the website but less illumination than the subject deserves.

So let’s highlight Smith’s contribution to public understanding of why the Darwin debate matters. His recounting of terrorist and other heinous acts by animal-rights extremists (even grave-robbing!), his exploration of the wicked views of “personhood” theorist Peter Singer, author of A Darwinian Left and the manifesto Animal Liberation -- these tell us about the leading edge of what you might call the animalist view, equating humans with animals.

Dear [Snip],

Greetings and thanks for your e-mail. ID is most definitely testable and falsifiable. It uses the scientific method and explains many patterns we observe in nature.

Let's start with how ID uses the scientific method. The scientific method is commonly described as a four-step process involving observations, hypothesis, experiments, and conclusion. ID begins with the observation that intelligent agents produce complex and specified information (CSI). Design theorists hypothesize that if a natural object was designed, it will contain high levels of CSI. Scientists then perform experimental tests upon natural objects to determine if they contain complex and specified information. One easily testable form of CSI is irreducible complexity, which can be discovered by experimentally reverse-engineering biological structures to see if they require all of their parts to function. When ID researchers find irreducible complexity in biology, they conclude that such structures were designed.

Here is an example. While reading the ”critique” of Steve Meyer’s book, Signature in the Cell, by Francisco Ayala, a number struck me that I know to be incorrect. The integer that I am referring to is “25,000” and it is claimed to be the known tally of genes in our chromosomes:

The human genome includes about twenty-five thousand genes and lots of other (mostly short) switch sequences…

Other criticisms, however, are fluffy confections, failing to achieve even the slightness of what Hume called “mere cavils and sophisms.” Let’s look at one such bonbon of sophistry, Shallit’s claim that weather forecasting represents a devastating counterexample to SITC's argument that complex specified information is, universally in human experience, produced by a mind or intelligence.

Darrell Falk at the Biologos Foundation was apparently responsible for inviting Ayala to comment on Meyer’s book, and has been drawn into the debate.

He published the first part of Meyer’s response to Ayala, but not without first offering his “background comments” about the debate. (I think David Klinghoffer has said what needs to be said about that.) The Biologos Foundation is committed to the “science-and-religion dialogue.” In my opinion, however, they have a peculiar way of fostering dialogue.

Those who've been following the debate between Meyer and his critics know that there has been a bit of back and forth since Ayala was invited to critique SITC on the Biologos website. Meyer has responded this week, with the first of two parts on the Biologos site.

Discovery Institute would like to initiate a full-fledged, official debate between the two, and so we have already sent the following invitation to Dr. Ayala.

Dear Professor Ayala:

I am writing to you in my capacity as the Director of Research for the Center for Science and Culture at the Discovery Institute.

As you know, there is widespread interest but also widespread disagreement on the relationship between faith and science. Unfortunately, much of the dialogue on science and religion proceeds without careful examination of the scientific evidence in dispute in chemical and biological evolution. Surely one should consider, for instance, the evidence for a chemical evolutionary scenario before reflecting on its implications for religious belief.

In the same way, contemporary intelligent design arguments are often criticized on theological grounds, without first engaging ID arguments on scientific grounds. As a result, the scientific issues are rarely fully aired. For instance, you recently were asked by Biologos to comment on Stephen Meyer’s new book, Signature in the Cell. Unfortunately, the forum did not provide the opportunity for a full critique of the book, as well as a full response by Dr. Meyer.

I am writing to offer you just such an opportunity. I would like to invite you to participate in a public debate with Dr. Meyer on the thesis of Signature in the Cell at a time and place that is mutually convenient. To limit your own travel and expenditure of time, we would be happy to have the debate take place at the University of California, Irvine.

There would be many details to work out, of course; but I wanted first to extend a formal invitation for you to participate in such a forum. Please let me know at your earliest convenience.

Sincerely yours,

Jay Richards
Director of Research
Center for Science & Culture

As a former book review editor (at National Review), I take a professional interest in book reviews and all the things that can go right or wrong with them. I confess, though, I’ve never seen anything quite like the treatment of Stephen Meyer’s book, Signature in the Cell: DNA and the Evidence for Intelligent Design, on BioLogos, the curious website funded by the Templeton Foundation and specializing in Christian apologetics for Darwin. The site published what was clearly, unambiguously written to look like a review by biologist Francisco Ayala that, as Steve Meyer pointed out already, actually gave every evidence that Ayala had not read the book. (My colleague Dr. Meyer thinks Ayala did read the Table of Contents, but on this I must disagree.)

On what did Ayala base his views about Signature? This is a bit of a mystery. BioLogos president Dr. Darrel Falk is unstinting with fulsome praise for Ayala (“one of Biology’s living legends”). Falk claims he actually asked Ayala to respond to Falk’s review of Signature. Falk purports that in publishing Ayala’s review, he mistakenly failed to introduce it with the disclaimer that Ayala was reviewing Falk’s review, not Meyer’s book per se. Yeah, sure. Falk’s review did not provide Ayala with his absurd misrepresentation of Meyer’s argument. Instead Ayala gives every impression of having derived that from his own assessment of the book itself. As Ayala claims,

The keystone argument of Signature of the Cell [sic] is that chance, by itself, cannot account for the genetic information found in the genomes of organisms. I agree. And so does every evolutionary scientist, I presume. Why, then, spend chapter after chapter and hundreds of pages of elegant prose to argue the point?

What’s notable is that Falk in his own review, whatever its other faults or merits, never claimed that Signature is all about proving that “chance by itself, cannot, account for the genetic information found in genomes.” Falk doesn’t mention the word “chance.” So where did Ayala get his mistaken notion? All one can say is, not from the book, which he patently didn’t read, and not from Falk. Indeed, Ayala in his essay does not mention Falk or Falk’s review. Clearly, Ayala wanted readers to think he was reviewing Signature in the Cell—or Signature of the Cell as he repeatedly calls it. Thus, for example, he commends Meyer for his “elegant prose.” The idea that Ayala was merely acting in good faith on Falk’s assignment of responding to Falk’s review is hardly believable.

The legal incentive to pair global warming with evolution in curriculum battles stems in part from a 2005 ruling by a United States District Court judge in Atlanta that the Cobb County Board of Education, which had placed stickers on certain textbooks encouraging students to view evolution as only a theory, had violated First Amendment strictures on the separation of church and state.

Although the sticker was not overtly religious, the judge said, its use was unconstitutional because evolution alone was the target, which indicated that it was a religious issue.

Fitness costs are real, and biological realities like fitness cost and other limits to evolution play a vital role in shaping strategies used to combat antibiotic resistance, antiviral resistance, and pesticide resistance. In fact, were it not for the existence of fitness cost, in many cases antibiotic resistant bacteria would proliferate and resistant strains would soon replace non-resistant strains. Because of fitness costs, resistant strains are outcompeted by non-resistant bacteria once selection pressure is relaxed, allowing doctors to combat antibiotic resistance through various drug usage strategies.