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From Darwinists, a Shift in Tone on Nanomachines

William A. Dembski
Revolutionary
Image source: Discovery Institute.

I am reviewing Jason Rosenhouse’s new book, The Failures of Mathematical Anti-Evolutionism (Cambridge University Press), serially. For the full series so far, go here.

Unfortunately for Darwinists, irreducible complexity raises real doubts about Darwinism in people’s minds. Something must be done. Rising to the challenge, Darwinists are doing what must be done to control the damage. Take the bacterial flagellum, the poster child of irreducibly complex biochemical machines. Whatever biologists may have thought of its ultimate origins, they tended to regard it with awe. Harvard’s Howard Berg, who discovered that flagellar filaments rotate to propel bacteria through their watery environments, would in public lectures refer to the flagellum as “the most efficient machine in the universe.” (And yes, I realize there are many different bacteria sporting many different variants of the flagellum, including the souped-up hyperdrive magnetotactic bacteria, which swim ten times faster than E. coli — E. coli’s flagellum, however, seems to be the one most studied.)

Why “Machines”?

In 1998, writing for a special issue of Cell, the National Academy of Sciences president at the time, Bruce Alberts, remarked:

We have always underestimated cells… The entire cell can be viewed as a factory that contains an elaborate network of interlocking assembly lines, each of which is composed of a set of large protein machines… Why do we call the large protein assemblies that underlie cell function protein machines? Precisely because, like machines invented by humans to deal efficiently with the macroscopic world, these protein assemblies contain highly coordinated moving parts. [Emphasis in the original.]

A few years later, in 2003, Adam Watkins, introducing a special issue on nanomachines for BioEssays, wrote: 

The articles included in this issue demonstrate some striking parallels between artifactual and biological/molecular machines. In the first place, molecular machines, like man-made machines, perform highly specific functions. Second, the macromolecular machine complexes feature multiple parts that interact in distinct and precise ways, with defined inputs and outputs. Third, many of these machines have parts that can be used in other molecular machines (at least, with slight modification), comparable to the interchangeable parts of artificial machines. Finally, and not least, they have the cardinal attribute of machines: they all convert energy into some form of ‘work’.

Neither of these special issues offered detailed step-by-step Darwinian pathways for how these machine-like biological systems might have evolved, but they did talk up their design characteristics. I belabor these systems and the special treatment they received in these journals because none of the mystery surrounding their origin has in the intervening years been dispelled. Nonetheless, the admiration that they used to inspire has diminished. Consider the following quote about the flagellum from Beeby et al.’s 2020 article on propulsive nanomachines. Rosenhouse cites it approvingly, prefacing the quote by claiming that the flagellum is “not the handiwork of a master engineer, but is more like a cobbled-together mess of kludges” (pp. 151–152):

Many functions of the three propulsive nanomachines are precarious, over-engineered contraptions, such as the flagellar switch to filament assembly when the hook reaches a pre-determined length, requiring secretion of proteins that inhibit transcription of filament components. Other examples of absurd complexity include crude attachment of part of an ancestral ATPase for secretion gate maturation, and the assembly of flagellar filaments at their distal end. All cases are absurd, and yet it is challenging to (intelligently) imagine another solution given the tools (proteins) to hand. Indeed, absurd (or irrational) design appears a hallmark of the evolutionary process of co-option and exaptation that drove evolution of the three propulsive nanomachines, where successive steps into the adjacent possible function space cannot anticipate the subsequent adaptations and exaptations that would then become possible. 

The shift in tone from then to now is remarkable. What happened to the awe these systems used to inspire? Have investigators really learned so much in the intervening years to say, with any confidence, that these systems are indeed over-engineered? To say that something is over-engineered is to say that it could be simplified without loss of function (like a Rube Goldberg device). And what justifies that claim here? Have scientists invented simpler systems that in all potential environments perform as well as or better than the systems in question? Are they able to go into existing flagellar systems, for instance, and swap out the over-engineered parts with these more efficient (sub)systems? Have they in the intervening years gained any real insight into the step-by-step evolution of these systems? Or are they merely engaged in rhetoric to make flagellar motors seem less impressive and thus less plausibly the product of design? To pose these questions is to answer them.

A Quasi-Humean Spirit

Rosenhouse even offers a quasi-Humean anti-design argument. Humans are able to build things like automobiles, but not things like organisms. Accordingly, ascribing design to organisms is an “extravagant extrapolation” from “causes now in operation.” Rosenhouse’s punchline: “Based on our experience, or on comparisons of human engineering to the natural world, the obvious conclusion is that intelligence cannot at all do what they [i.e., ID proponents] claim it can do. Not even close. Their argument is no better than saying that since moles are seen to make molehills, mountains must be evidence for giant moles.” (p. 273) 

Seriously?! As Richard Dawkins has been wont to say, “This is a transparently feeble argument.” So, primitive humans living with stone-age technology, if they were suddenly transported to Dubai, would be unable to get up to speed and recognize design in the technologies on display there? Likewise, we, confronted with space aliens whose technologies can build organisms using ultra-advanced 3D printers, would be unable to recognize that they were building designed objects? I intend these statements as rhetorical questions whose answer is obvious. What underwrites our causal explanations is our exposure to and understanding of the types of causes now in operation, not the idiosyncrasies of their operation. Because we are designers, we can appreciate design even if we are unable to replicate the design ourselves. Lost arts are lost because we are unable to replicate the design, not because we are unable to recognize the design. Rosenhouse’s quasi-Humean anti-design argument is ridiculous.

Next, “Darwinist Turns Math Cop: Track 1 and Track 2.”

Editor’s note: This review is cross-posted with permission of the author from BillDembski.com.