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Saturday, 24 June 2023

Speaking of ID...

 How to Discuss Intelligent Design with Friends


Evolution News

On a classic episode of ID the Future, Tom Gilson — author, senior editor with The Stream, and occasional contributor to Evolution News — tackles the question of how best to discuss intelligent design (ID) with friends and associates skeptical of the theory. There is so much misinformation about the theory of ID that many well-intended people reject not the actual theory but a silly caricature, a straw man. They don’t realize that ID is not an argument from ignorance but an inference to the best explanation based on positive evidence for design and negative evidence against competing materialistic explanations. It involves abductive reasoning, a standard mode of reasoning in the historical sciences. When in conversation with someone who understands none of this, Gilson suggests using the Socratic method and, in particular, posing three questions designed to turn down the heat, promote dialogue, and draw the other person into a discovery of the actual theory of intelligent design. Try it with friends, colleagues, and family members! Download the podcast or listen to it here

Friday, 23 June 2023

No Jehovah,no Justice,no Peace here's why.

   The pseudo-religious bureaucracies of this age have given religion/worship a bad name.Likely many would agree with Indian statesman Jawarlal Nehru when he said that the spectacle of organised religion in India and elsewhere filled his mind with horror,and that it seems almost always to stand for superstition,ignorance,bigotry,exploitation,the vested interest of entrenched elites and the like.But long before Nehru now famous religious leader/teacher Jesus Christ had some choice words for the leaders of the dominant religion of his time and place: Matthew23:13KJV "But woe unto you scribes and pharisees,!For ye shut up the kingdom of heaven against men:For ye go in yourselves,neither suffer ye them that are entering to go in.Woe unto you,scribes and pharisees,hypocrites!For ye devour widows houses,and for a pretence make long prayer:Therefore ye shall receive the greater damnation.


   Two things to note in Jesus censure 1)The hypocrisy of these religious leaders separated them from God 2)Their hypocrisy turned others away from the God's truth.How?The bible suggest two ways 1)Matthew23:15ESV "Woe to you, scribes and pharisees,hypocrites!For you travel across sea and land to make a single proselyte,and when he becomes a proselyte,you make him twice as much a child of hell as yourselves."

  2)2Peter2:2 "Many will follow their sensuality,and because of them the way of truth will be blasphemed."

 On account of its bringing his name and kingdom into disrepute pseudo-religion in general and Christendom in particular is in the cross hairs of Jehovah's war machine.The bible tells us that soon pseudo-religion will pay a heavy price for its political meddling, greed and hypocrisy.Revelation19:2"because His judgments are trued and righteous,e

because He has judged the notorious prostitutef

who corrupted the earth with her sexual immorality;

and He has avenged the blood of His •slaves

that was on her hands.g"

There are of course those who urge an abandonment of the quest for the creator God.They claim that accepting a status of cosmic orphanhood and making new gods of chance,necessity,matter and self are the only way to free ourselves from the abuses of the past.To begin with militant atheist have been every bit as unsuccessful on liberating their flock from the racism,nationalism,militarism and greed that have always been the main triggers of conflict as theistic pseudo-religionists have.Additionally there are practical reasons that universal justice and peace are simply not possible apart from Jehovah's assertion of his rightful sovereignty over the globe

 1)Only Jehovah as creator can claim unimpeachable legitimacy as a global governor,there plain and simply is no man or group of men(or angels for that matter)that can be trusted with that kind of authority,apart from the fact that it is a universally accepted legal principle that the creator be recognised as legal owner of what he has produced.Jehovah is totally independent of his creation and is thus morally incorruptible,What could anyone possibly offer him as a bribe?A new luxury car?Tickets to the big game?A case of champagne perhaps?With him in charge mankind will finally have a ruler worthy of utter confidence and loyalty.

2)Jehovah is not learning on the job the very wisest among us human or superhuman is only just beginning to understand how to get the most out of Jehovah's creation Jehovah has been there and done that so to speak.No more guessing games with people's lives,health and prosperity.

3)Only Jehovah has the might/smarts to bring leviathan and his hordes to heal.There is a reason that the criminal and otherwise sociopathic elements of society always seem ahead of the agencies charged with countering them.Why instead they have consistently succeeding in corrupting the wider society.Some might be prepared to acknowledge behind the scenes influences on the human level.They might be less willing to acknowledge the Bible's warning that the corruption of the main institutions of our global civilisation extends to the realm of the superhuman see Ephesians6:12.Until our civilisation is rid of these malignant minds human and superhuman advances in technology will continue to be more of a curse than a blessing.

  4)Only Jehovah can guarantee infallible judgement.Not only is he first hand witness to all wrongdoing and right doing he can read hearts.This means that under his rule not only will we finally have a ruler worthy of our complete trust we will have fellow servants worthy of our complete trust.Picture a society with no need for

police,soldiers,spies,security personnel of any kind,courts,magistrates,judges,jails,locks,keys.Impossible you say?Certainly in the atheistic universe we could entertain no such hope.

 5)Justice delayed is Justice denied the saying goes.What about when justice never arrives?The number of unsolved crimes on the files of this world's law enforcement agencies is in the tens of thousands some of these are horrific indeed heartbreaking murders.What about those who have been erroneously convicted crimes they never committed What about past victims of state sponsored injustice.Jehovah is not only mankind's only hope of a just future he ALONE can counter the injustices of the past.

What is a hominid?

 Fossil Friday: To Be or Not to Be Homo


Gunter Bechly

The fossil hominin Homo habilis was described 1964 by famous paleoanthropologist Louis Leakey and his colleagues from the 1.9 million year old Olduvai Gorge locality in Tanzania (Leakey et al. 1964). Even though this taxon is only known from a small and highly incomplete collection of isolated bone fragments, it has become the crucial hominid species that supposedly bridges the gap between the ape-like australopithecines and our human genus Homo. Because of the association of the bones with stone tools it has been named Homo habilis, which means “handy man.” However, its alleged position as transitional form is quite controversial (also see Gibbons 2011, Luskin 2007, 2015), and even the validity of the species has been questioned because it seems to be “a wastebasket taxon, little more than a convenient recipient for a motley assortment of hominin fossils” (Tattersall 1992). Homo habilis certainly was not the ancestor of later Homo species, because he is too recent and coexisted with early Homo ergaster, thus leaving a distinct gap between australopithecines and the genus Homo (Hawks et al. 2000).

A Dubious Attribution?

Since its small brain volume falls within the range of australopithecines, several scientists very early doubted the attribution of H. habilis to the genus Homo. Also the hand and feet are more ape-like and exhibit clear adaptations for climbing. Walker & Shipman (1996: 132) said that H. habilis is even more ape-like than Lucy, and Spoor et al. (1994) even remarked in their comparative study of hominid labyrinthine morphology that “The specimen Stw 53 provisionally attributed to H. habilis, differs from all other hominids … [and] shows greatest similarities to the pattern observed for large cercopithecoids …[which] suggest that Stw53 relied less on bipedal behaviour than the australopithecines”. Holly Smith (1994) concluded from the comparative study hominid patterns of dental development that gracile australopithecines and H. habilis remain classified with African apes. Wood & Collard (1999a, 1999b, 2001), Collard & Wood (2007, 2015) could show that in none of the crucial character H. habilis is closer to Homo than to Australopithecus.

An Assignment Rejected

Therefore, they suggested that H. habilis should be transferred to the genus Australopithecus, which was also supported by Hartwig-Scherer (1999) and Schwartz & Tattersall (2015). This assignment was rejected by Harcourt-Smith (2007) based on postcranial characters, while Berger et al. (2015) agreed that “postcranial remains of H. habilis appear to reflect an australopith-like body plan”. Spoor et al. (2015) found that the mandible of H. habilis is remarkably primitive and more similar to Australopithecus afarensis. They also reconstructed a slightly larger brain volume for the holotype and clarified the definition of the taxon Homo habilis, but cautioned that the results raise questions about its phylogenetic relationships. It is also very much contradicting Darwinian expectations, that the oldest specimens of Homo habilis, such as the 2.3 million year old specimen no. AL 666-1, possess more advanced characters than the younger holotype specimen OH 7, which lived more than a half million years later. One of the most striking contradictions is the fact that the bones of Homo habilis and many other animals were found in the context of so-called “butchering sites” together with stone tools, and in the neighbourhood of rock circles that very much look like the stone huts still used by modern nomadic tribes of the region (Leakey 1972: 24).


These rock circles and huts demonstrably originated at the same time as Homo habilis, which obviously suggests that this ape-like creature was rather the animal prey of contemporary human hunters than a human ancestor and producer of stone tools. Otherwise, we would have to believe highly implausible hypothesis that an ape-like creature with an ape-sized brain and climbing adaptations built stone huts like modern humans. Anyway, the majority of evolutionists of course ignored all such doubts among the experts and blindly embraced Homo habilis as a cherished “missing link” without asking inconvenient and potentially career-threatening questions.

Reference

Berger LR, Hawks J, de Ruiter DJ et al. 2015. Homo naledi, a new species of the genus Homo from the Dinaledi Chamber, South Africa. eLife 4:e09560, 1–35. DOI: https://doi.org/10.7554/eLife.09560

Collard M & Wood B 2007. Defining the Genus Homo. pp. 1575–1610 in: Henke W & Tattersall I (eds). Handbook of Paleoanthropology. 3 vols. Springer, Berlin, 2069 pp.

Collard M & Wood B 2015. Defining the Genus Homo. pp. 2107–2144 in: Henke W & Tattersall I (eds). Handbook of Paleoanthropology. 3 vols. Springer, Berlin, xliii+2624 pp. DOI: https://doi.org/10.1007/978-3-642-39979-4_51

Gibbons A 2011. Who Was Homo habilis—And Was It Really Homo? Science 332(6036), 1370–1371. DOI: https://doi.org/10.1126/science.332.6036.1370

Harcourt-Smith WEH 2007. The Origins of Bipedal Locomotion. pp. 1483–1518 in: Henke W, Tattersall I (eds). Handbook of Paleoanthropology. 3 vols. Springer, Berlin, 2069 pp.

Hartwig-Scherer S 1999. “Homo” habilis ab jetzt kein Mensch mehr. Studium Integrale Journal 6(2), 85–87. http://www.si-journal.de/index2.php?artikel=jg6/heft2/sij62-5.html

Hawks J, Hunley K, Lee S-H & Wolpoff M 2000. Population Bottlenecks and Pleistocene Human Evolution. Molecular Biology and Evolution 17(1), 2–22. DOI: https://doi.org/10.1093/oxfordjournals.molbev.a026233

Holly Smith B 1994. Patterns of Dental Development in Homo, Australopithecus, Pan, and Gorilla. American Journal of Physical Anthropology 94(3), 307–325. DOI: https://doi.org/10.1002/ajpa.1330940303

Leakey MD 1972. Olduvai Gorge: Volume 3, Excavations in Beds I and II, 1960-1963. Cambridge University Press, Cambridge (UK), xix+306 pp.

Leakey LSB, Tobias PV & Napier JR 1964. A new species of the genus Homo from Olduvai Gorge. Nature 202(4927), 7–9. DOI: https://doi.org/10.1038/202007a0

Luskin C 2007. Paleoanthropologists Disown Homo habilis from Our Direct Family Tree. Evolution News August 9, 2007. https://evolutionnews.org/2007/08/paleoanthropologists_disown_ho/

Luskin C 2015. As a Taxonomic Group, “Homo habilis” Is Challenged in the Journal Science. Evolution News September 9, 2015. https://evolutionnews.org/2015/09/as_a_taxonomic_/

Schwartz JH & Tattersall I 2015. Defining the genus Homo. Science 349(6251), 931–932. DOI: https://doi.org/10.1126/science.aac6182

Spoor F, Wood B & Zonneveld F 1994. Implications of early hominid labyrinthine morphology for the evolution of human bipedal locomotion. Nature 369(6482), 645–648. DOI: https://doi.org/10.1038/369645a0

Spoor F, Gunz P, Neubauer S, Stelzer S, Scott N, Kwekason A & Dean MC 2015. Reconstructed Homo habilis type OH 7 suggests deep-rooted species diversity in early Homo. Nature 519(7541), 83–86. DOI: https://doi.org/10.1038/nature14224

Tattersall T 1992. The Many Faces of Homo habilis. Evolutionary Anthropology 1(1), 33–37.

Walker A & Shipman P 1996. The Wisdom of the Bones: In Search of Human Origins. Knopf, New York (NY), 368 pp.

Wood B & Collard M 1999a. The Human Genus. Science 284(5411), 65–71. DOI: https://doi.org/10.1126/science.284.5411.65

Wood B & Collard M 1999b. The changing face of genus Homo. Evolutionary Anthropology 8(6), 195–207. DOI: https://doi.org/10.1002/(SICI)1520-6505(1999)8:6<195::AID-EVAN1>3.0.CO;2-2

Wood B & Collard M 2001. The meaning of Homo. Ludus Vitalis 9(15), 63–74. http://profmarkcollard.com/wp-content/uploads/2014/09/Wood-and-Collard-2001.pdf


Natural antifreeze vs. Darwin.

 Blood Viscosity and Freezing Temperatures — A Titanic Problem

Emily Reeves

Editor’s note: With the RMS Titanic tragically back in the news this week, we thought of this article from last year by biochemist Emily Reeves. She notes a question about the character Jack in the movie Titanic, and addresses a fascinating problem in marine biology.

Dr. Gregory Sloop is a Montana physician who knows a thing or two about the cardiovascular system. He has an article in the journal BIO-Complexity highlighting the sleek design of the Antarctic icefish that allows it to live in super-cold waters without freezing to death.

Icefish, aka the family Channichthydiae, survive at 0oC in the Southern Ocean by maintaining blood viscosity at the set point of 3.27 centipoise — a level nearly identical to human blood. They do this without hemoglobin, which is the primary determinant of human and other red-blooded animals’ blood viscosity.

Since icefish don’t have hemoglobin, how do they maintain blood viscosity? Also, how do they breathe? Turns out they maintain viscosity at freezing temperatures primarily by using a special type of glycoprotein: the antifreeze protein. And because oxygen has a higher solubility at lower temperatures, icefish don’t need an oxygen transport molecule like hemoglobin. 

Why Jack Froze

In case you were wondering, blood viscosity is the technical reason why Jack (Rose’s buddy aboard the Titanic) froze in less than 23 minutes, but icefish can survive for 15 years in water of a freezing temperature. Viscosity increases at lower temperatures, and at 0oC human blood reaches a viscosity that is not compatible with life. This is because hemoglobin as a protein is not able to keep viscosity low enough at freezing temperatures. But the antifreeze protein can (think: custom design).

While a viscosity too high is incompatible with life, a low viscosity is also unsuitable for sustaining life. This is because a properly functioning cardiovascular system must have optimized laminar flow and low vascular resistance, which can be achieved only through coordinated control of blood viscosity and specification of vascular geometry.

Stop Criticizing Icefish

Dr. Sloop says icefish have been criticized for expending nearly 22 percent of their basal metabolic rate pumping their hemoglobinless blood compared to at most 5 percent in temperate fish. But he reminds his readers that’s just the cost of doing business in the chilly — well technically, freezing — waters of the Southern Ocean.

Sloop also emphasizes that everything about the icefish is like a custom-fitted suit — appropriate for niche needs. Features included for dealing with the extreme cold are a high-output, low resistance vasculature where the diameter of muscle capillaries is 2-3 times larger than those of other fish.

These fish also have a heavy heart which delivers a larger stroke and therefore higher volume. Together these features enable a high-output, high-velocity, low-pressure, and low-resistance circulation.

Truly, every part of these incredible creatures is optimized for cold. Could all these custom changes be the result of random mutation? Dr. Sloop thinks that is very unlikely. What do you say?


Continuing to rethink the unthinkable


Yet another shot at explaining black holes


Comb Jelly's have never been a "simple lifeform"

Earliest Comb Jellies Wore Armor — “Remarkable,” Say Researchers

David Coppedge 

What does it take to wear armor? An animal has to be able to make the material and put it where it belongs. To be functional, the armor cannot interfere with the animal’s movement. And the animal cannot simply glue sand particles on its exterior in a haphazard way. The appropriate materials, directed by genetic instructions, must be manufactured and placed holistically so that the finished armor provides a beneficial function. It would be surprising, under an evolutionary view, to find such a complex system in the earliest animal fossils. But that’s what Chinese paleontologists discovered in their country’s early Cambrian rocks.

Phylum Ctenophora (cilia-bearing) has about 150 living representatives. While most of them have tentacles, none have hard parts. Varying in size from a few millimeters to over a meter, they resemble jellyfish (phylum Cnidaria) in being gelatinous and transparent, but are distinct in having eight-fold radial symmetry with comb-like rows of fused cilia that propel them around. Some living comb jellies give stunning light shows as their comb rows reflect light in rainbows of iridescent colors, making them resemble alien spacecraft.

Though not bilaterians, they have complex body plans with a buoyancy organ called a statolith, muscles, a nervous system, an alimentary canal, and the ability to control the direction of their locomotion. The phylum made its appearance in the earliest Cambrian layers, dated 520 million years ago. That takes us to the Chengjiang biota in China, one of the finest exposures of early Cambrian fossils in the world.

A Surprise for Fossil Hunters

Seven Chinese researchers found beautifully preserved comb jellies in lower Cambrian strata — three new species and three reclassified species — all with armor. Their open-access paper in Science Advances, “A vanished history of skeletonization in Cambrian comb jellies,” shows the photographs of the fossils along with diagrams of how they probably looked. Armored struts and plates are arranged in complex shapes along the animals’ exterior, following the eight-fold symmetry and making up complex curves. One of the species has spines along its outer struts. The fossil hunters were quite surprised:

They share a basic body plan characterized by a tentacleless and octaradial body with an oral-aboral axis, eight rigid struts (termed here “spokes”) radiating from the aboral end and arched to converge to the oral end, eight soft-bodied flaps or lobes supported by the spokes, eight pairs of ctene rows, a conspicuous apical (or aboral) organ walled by eight rigid plates and housing a spheroidal or ellipsoidal statolith, and an oral region surrounded by eight apiculate lappets…

The eight arcuate spokes [in one species] bear robust spines (Fig. 2, L to N, and figs. S4 to S6) and retain their structural integrity even when disarticulated, suggesting a remarkable degree of sclerotization.

The plates have “considerable rigidity,” they noticed, retaining their integrity even when separated. Some of the hard parts protrude into different layers of sediments. It’s not clear what the armor is made of, but the authors presume it is chitin, the same protein that makes up the exoskeleton of arthropods. “The spokes and apical plates of scleroctenophores were likely cuticular or chitinous in composition, but the presence of minerals in their skeletons cannot be completely ruled out, given that the epidermis of extant ctenophores can produce Mg-Ca carbonates that partially form the statolith,” they say. The statoliths of some fossil specimens even preserve some organic carbon.

Evolutionary Speculations

The authors are not sure about the function of the armor, but indulge in some evolutionary speculation. The typical evolutionary explanation is to imagine an “arms race” that forced the animals to defend themselves against a new class of predators. It seems obvious, though, that nothing about predation can cause a brainless animal to build a suit of armor. It could more easily just go extinct. 

What’s even more remarkable (a word they use themselves) is that the ctenophores are not alone in being armored compared to living counterparts. They use this observation to support a view from the late Stephen Jay Gould that evolution is highly unpredictable:

The occurrence of sclerotized and armored skeletons in Cambrian representatives of several animal groups — including entoprocts, phoronids, lobopods, scalidophorans, and now ctenophores that are exclusively soft-bodied among modern survivors — is a remarkable phenomenon. The independent skeletonization among these diverse Cambrian animals provides indirect evidence for an intensified level of ecological interactions (for example, arms race) and also highlights the importance of paleontological data in illuminating the evolutionary legacy that would be otherwise inaccessible by studying living animals alone. The widespread occurrence of skeletonization echoes Stephen Jay Gould’s view of the striking morphological disparity of many animal phyla during their Cambrian debut, and the contrasting evolutionary trajectories of skeletonized cnidarians and ctenophores also elucidate the contingent fate of evolutionary innovations such as skeletonization.

Protection from Evidence

This kind of explanation serves only to protect Darwinian evolution from the evidence. If animals are similar, they evolved. If animals are different, they evolved. But the authors noticed that the “morphological disparity” in the Cambrian explosion exists not only between phyla, but between species within phyla. Earlier, they referred to the explosion:

Here, we report several sclerotized and armored ctenophore species, based on new material and reinterpretation of previously published material from the early Cambrian Chengjiang biota (ca. 520 Ma). Along with armored Cambrian entoprocts, phoronids, lobopods, and scalidophorans, the new fossils suggest a vanished Cambrian history of skeletonization in multiple animal groups, imply the ecological importance of skeletonization in the Cambrian explosion, and highlight the remarkable morphological disparity in certain Cambrian animal clades relative to their modern survivors.

A “vanished Cambrian history of skeletonization in multiple animal groups” is inconsistent with Darwinian evolution. “Ecological importance” is incapable of producing genetic programming for an armored skeleton. “Morphological disparity” at the earliest onset of complex animals is the opposite of Darwin’s image of a branching tree gradually separating into more and more complex types.


Designers, by contrast, know how to apply a common solution in different applications. That’s why it’s unsurprising to see complex armor in disparate groups from the beginning. 


Stephen Meyer did not go into detail about ctenophores in Darwin’s Doubt, other than to note they are among the phyla that suddenly appeared in the Cambrian explosion (p. 32). But this revelation that ctenophores are more complex than originally realized, possessing elaborate armor, certainly reinforces his contention that “the best explanation for the explosion of information necessary for the Cambrian animals… remains intelligent design” (see the Epilogue in the paperback edition, p. 448).



Time to end fractional banking?


Thursday, 22 June 2023

A case for conditionalism


Rethinking the unrethinkable again


On irreducible complexity

 Answering Farina on Behe’s Work: Irreducible Complexity

Jonathan McLatchie

Editor’s note: We are delighted to welcome Dr. McLatchie as a new colleague. He is Resident Biologist and Fellow at the Center for Science and Culture.

On the Internet, some people are worth responding to and others are not. We have written enough lately in response to YouTuber Dave Farina following his recent debate with Rice University synthetic chemist Dr. James Tour. However, Mr. Farina has also posted a popular video criticizing Dr. Michael Behe’s work, and I will turn to that now.


I am a specialist in molecular and cell biology, and was thus interested in Farina’s video reviewing Michael Behe’s three books — Darwin’s Black Box, The Edge of Evolution, and Darwin Devolves. In this and several subsequent articles, I will offer a rebuttal to Mr. Farina’s analysis of Dr. Behe’s work. Here, I will address Farina’s commentary on Darwin’s Black Box – in particular, his alleged counterexamples of irreducibly complex systems having evolved by natural processes.

Evolution of the Cit+ Mutant

The video contends that Behe’s concept of irreducible complexity is empirically falsified by documented examples of systems that meet Behe’s definition of being “irreducibly complex” yet evolving by unguided mechanisms. The first exhibit is Richard Lenski’s long-term evolution experiment with Escherichia coli, in which it was observed that, after some 33,000 generations (15 years), bacterial cells evolved the ability to grow on citrate under aerobic conditions.1 The genetic basis for this ability was subsequently identified.2 E. coli already possesses the ability to grow on citrate under anaerobic conditions, facilitated by a citrate transporter protein encoded by the gene citT. A 2933 base pair stretch of DNA, containing the citT gene, underwent duplication. The result was that a copy of the hitherto unexpressed citT gene was placed under the control of the promoter of the adjacent gene, rnk, which as a consequence drove expression under aerobic conditions. This is a relatively simple change that does not require multiple co-dependent mutations to bring it about. Indeed, this instance of adaptation does not even require the origin of any novel genes and proteins, or even the modification of existing ones. The citT gene already codes for a citrate transporter which imports citrate into the cell in the absence of oxygen. The duplication event led to a loss of regulation of the citT protein such that it was expressed under both oxygen-rich and oxygen-deficient conditions, rather than in only oxygen-deficient ones.

Furthermore, the ability of the cells to grow on citrate under aerobic conditions was optimized by several other mutations.3 As Behe himself summarizes:

Even before the critical mutation occurred, a different mutation in a gene for a protein that makes citrate in E. coli degraded the protein’s ability to bind another metabolite, abbreviated NADH, which normally helps regulate its activity. Another, later, mutation to the same gene decreased its activity by about 90 percent. Why were those mutations helpful? As the authors write, ‘When citrate is the sole carbon source, [computer analysis] predicts optimal growth when there is no flux through [the enzyme]. In fact, any [of that enzyme] activity is detrimental.’ And if something is detrimental, random mutation will quickly get rid of it. Further computer analysis by the authors suggested that the citrate mutant would be even more efficient if two other metabolic pathways that were normally turned off were both switched on. They searched and discovered that two regulatory proteins that usually suppress those pathways had been degraded by point mutations; the traffic lights were now stuck on green.4

In other words, these mutations that optimized the ability of the cells to grow on citrate were in fact damaging. Since they supported the present needs of the organism, they were preserved by natural selection. As Behe argues at length in Darwin Devolves, the majority of mutations that are subject to positive selection are damaging rather than constructive, since there are far more ways to acquire an advantage by breaking something than there are ways to do so by building something. Readers may find interesting Behe’s response to Richard Lenski’s review of Darwin Devolves, which you can find here.

One researcher who has studied the evolution of citrate metabolism in E. coli is microbiologist Dr. Scott Minnich, a Fellow with Discovery Institute’s Center for Science and Culture. Farina is aware of this fact, and states that “Ironically, one of Behe’s colleagues at Discovery Institute, Dr. Scott Minnich — a professor in the department of agricultural and life sciences at the University of Idaho — co-authored a paper describing this pathway in detail, inadvertently highlighting its irreducible nature. I’m sure he got a slap on the wrist from Meyer and pals for that.” However, the Minnich paper5 in fact supports Behe’s interpretation of these results rather than Lenski’s — that is, that “no new functional coded element was gained or lost, just copied.”6 I am therefore doubtful that Farina has read the paper. Lenski’s original paper had suggested that the adaptation process involved three steps — potentiation (involving initial neutral mutations), actualization (the promoter fusion event described above), and refinement (increasing expression of the dctA gene, encoding a transporter that facilitates recovery of lost succinate during citrate import). In the view of Lenski and his colleagues, the reason the trait took some 15 years to evolve is because of the need for the initial neutral mutations (“historical contingency”) that by themselves do not promote growth but are necessary for the later actualization event. Minnich’s lab demonstrated that the mutants observed by the Lenski lab could be isolated much more rapidly — within 14 days rather than 15 years (and in as few as a hundred generations rather than 33,000) — and that the length of time it took in Lenski’s experiment more probably reflects an artifact of the experimental conditions than a requirement of evolution.

Vpu Protein

The video offers a few other supposed examples of irreducibly complex traits evolving, including the Vpu protein in HIV-1.7 Farina comments, 

This now has a novel function — inactivating a protein of the human immune system called tetherin. Human tetherin is different enough from the same protein in chimpanzees such that simian immunodeficiency virus, from which HIV evolved, can’t counter it. This new trait requires three to seven specific mutations, leading to several completely new protein binding sites. HIV only jumped from chimps into humans around 1930, so this is another recent example of an irreducibly complex trait evolving.

Vigan and Neil (2010) “carried out an extensive mutagenesis of the HIV-1 NL4.3 Vpu TM domain to identify three amino acid positions…that are required for tetherin antagonism.”8 Mutating two of these positions (namely, A14L and W22A) showed a marked defect, whereas the A18L mutant showed only a minor defect. Thus, it is not even the case that all three amino acid positions are crucial for tetherin antagonism. Furthermore, viruses have enormous population sizes and extremely high mutation rates. They are therefore able to evolve complex traits requiring multiple co-dependent mutations far more readily than more complex organisms, including bacteria. Thus, for those two reasons, this is really not a good example to cite in support of Farina’s contention about irreducible complexity arising in more complex organisms.

Horizontal Gene Transfer to the Rescue?

As a further example, the video offers “the many animals that eat photosynthetic algae which appear to be on their way to becoming photosynthetic themselves via endosymbiosis.” Farina cites a paper on “Horizontal gene transfer of the algal nuclear gene psbO to the photosynthetic sea slug Elysia chlorotica.”9 The paper discusses the acquisition of plastids by the sea slug Elysia chlorotica by ingestion of the photosynthetic algae Vaucheria litorea. Though more than 90 percent of the proteins required for plastid metabolism are encoded in the nuclear genome of the algae, the plastids are nonetheless still able to photosynthesize within the sea slug. The paper determines that the essential plastid proteins are supplied by the sea slug itself, and that the genes which support photosynthesis have been acquired through horizontal gene transfer. But this does not involve the evolution of any new complex traits. The genes and proteins already existed but were simply transferred from one organism to another.

Rapid Lizard Evolution?

Next, the video notes that “There are lizards which are transitioning from laying eggs to live birth, in one case doing both in a single litter,” citing a paper from 2019.10 But it seems more likely that the Saiphos equalis was designed with the capability of switching between laying eggs (“oviparous”) and carrying embryos internally until completely developed (“viviparous”). Indeed, as Farina noted, there was even one case of a female giving birth to a live infant and laying eggs in the same litter. Moreover, it has been shown that very similar genes are expressed between the two modes, suggesting “that reproductive mode is relatively labile in this species,” and that “there may be fewer physiological barriers to transitions between parity modes than previously thought, an assertion that is supported by our gene expression data, in which oviparous and viviparous individuals expressed genes with many of the same functions during the reproductive cycle.”11 Furthermore, it has been previously shown that differences in parity mode between two species of Phrynocephalus are due to differences in gene expression rather than the result of many mutations.12

Multicellular Algae

As a final example, the video argues that “There are the unicellular algae that evolved in the lab to become permanently multicellular,” citing a paper by Herron et al. (2018) — “De novo origins of multicellularity in response to predation.”13 In the study, populations of the unicellular green alga Chlamydomonas reinhardtii were subjected to selective pressure by the introduction of the filter-feeding predator Paramecium tetraurelia. They found that two of the five populations developed multicellular structures. However, the multicellular populations lacked motility and the multicellular structures did not evolve multiple cell types. Moreover, as the authors of the paper note, “The ability of wild-type C. reinhardtii to form palmelloids [i.e. multicellular structures] suggests that the founding population in our experiment already possessed a toolkit for producing multicellular structures.” While the strains that evolved in the experiment are obligately multicellular (meaning that being composed of multiple cells is an essential and permanent part of their life cycle), the authors suggest that the genetic basis of the evolved multicellularity phenotype “involves the co-option of a previously existing plastic response.” If this is the case, the authors note, “the shift from a primarily unicellular (but facultatively multicellular) to an obligately multicellular life cycle may have required only a change from facultative to obligate expression of the genes involved in palmelloid formation.” In other words, the transition from being able to exist as single-celled organisms, while forming multicellular structures under certain conditions, to being permanently multicellular may have involved a shift from being able to turn the relevant genes on or off to the genes being permanently locked on. See also this short article by Michael Behe where he addresses a similar paper.

Straw Man Arguments

A common tactic in debate is setting up and then knocking down a straw man argument — that is, a version of your interlocuter’s argument that has been modified to render it easier to refute. The Farina video complains that ID proponents turn scientific research into a game of whack-a-mole by moving on to some other system and claiming that it is irreducibly complex when prior similar claims have turned out to be false. He comments, “No matter how many times creationists point to a supposedly unevolvable system and then biologists figure out its evolutionary history, there’s always another system creationists will point to and say, ‘But this this one — surely, this one — couldn’t have evolved.” However, I am not persuaded that any of the systems that have been proposed by Behe and other proponents of ID to be irreducibly complex have been shown to be evolvable by naturalistic processes. It would be one thing if there were detailed, plausible evolutionary scenarios that could account for thousands of complex biological systems save for a relative handful. Instead, it is the case that essentially none of the complex systems found in living organisms can be plausibly accounted for in this way.

The video also grossly misrepresents the structure of the inference from irreducible complexity to design. As Farina summarizes, “Humans build things; therefore, everything must have been built.” In fact, the inference is much more nuanced. The argument says that well-matched arrangements of parts that work together to achieve some higher-level objective are the sorts of systems that are habitually associated with conscious agents — since intelligent beings, unlike naturalistic processes, are capable of goal-directedness. Therefore, on the hypothesis that a mind was involved in the creation of biological systems, the existence of irreducibly complex systems is not particularly surprising. However, if the design hypothesis is false, such systems become wildly surprising. Given the top-heaviness of this likelihood ratio (or “Bayes factor”), these systems favor a design hypothesis. Moreover, since each requires a significant appeal to chance, each one is epistemically independent, meaning that the Bayes factors for the many thousands of irreducibly complex systems multiply together, forming a massive cumulative case for design.

Notes


Blount ZD, Borland CZ, Lenski RE. Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli. Proc Natl Acad Sci U S A. 2008; 105(23):7899-906.

Blount ZD, Barrick JE, Davidson CJ, Lenski RE. Genomic analysis of a key innovation in an experimental Escherichia coli population. Nature. 2012;489(7417):513-8.

Quandt EM, Gollihar J, Blount ZD, Ellington AD, Georgiou G, Barrick JE. Fine-tuning citrate synthase flux potentiates and refines metabolic innovation in the Lenski evolution experiment. Elife. 2015; 4:e09696.

Behe MJ, Darwin Devolves: The New Science About DNA That Challenges Evolution (HarperOne, 2020), 139.

Van Hofwegen DJ, Hovde CJ, Minnich SA. Rapid Evolution of Citrate Utilization by Escherichia coli by Direct Selection Requires citT and dctA. J Bacteriol.2016;198(7):1022-34.

Behe MJ, Darwin Devolves: The New Science About DNA That Challenges Evolution (HarperOne, 2020), 188.

Lim ES, Malik HS, Emerman M. Ancient adaptive evolution of tetherin shaped the functions of Vpu and Nef in human immunodeficiency virus and primate lentiviruses. J Virol. 2010; 84(14):7124-34. 

Vigan R, Neil SJ. Determinants of tetherin antagonism in the transmembrane domain of the human immunodeficiency virus type 1 Vpu protein. J Virol. 2010; 84(24):12958-70.

Rumpho ME, Worful JM, Lee J, Kannan K, Tyler MS, Bhattacharya D, Moustafa A, Manhart JR. Horizontal gene transfer of the algal nuclear gene psbO to the photosynthetic sea slug Elysia chlorotica. Proc Natl Acad Sci U S A. 2008; 105(46):17867-71.

Laird MK, Thompson MB, Whittington CM. Facultative oviparity in a viviparous skink ( Saiphos equalis). Biol Lett. 2019; 15(4):20180827.

Griffith OW, Brandley MC, Belov K, Thompson MB. Reptile Pregnancy Is Underpinned by Complex Changes in Uterine Gene Expression: A Comparative Analysis of the Uterine Transcriptome in Viviparous and Oviparous Lizards. Genome Biol Evol. 2016; 8(10):3226-3239.

Gao W, Sun YB, Zhou WW, Xiong ZJ, Chen L, Li H, Fu TT, Xu K, Xu W, Ma L, Chen YJ, Xiang XY, Zhou L, Zeng T, Zhang S, Jin JQ, Chen HM, Zhang G, Hillis DM, Ji X, Zhang YP, Che J. Genomic and transcriptomic investigations of the evolutionary transition from oviparity to viviparity. Proc Natl Acad Sci USA.2019;116(9): 3646-3655.

M.D. Herron et al. (2019), “De novo origins of multicellularity in response to predation,” Scientific Reports 9: 2328.

Primeval nanomachines troll Darwinism again?

Local Fitness Landscape Mapped Out For Green Fluorescent Protein

Cornelius G Hunter  

As we have discussed many times, proteins are a show-stopper for evolution. Proteins consist of dozens, hundreds and even thousands of amino acids and, like most machines, they don’t work very well until most of the parts (amino acids in this case) are in place. Half of the amino acids don’t give you half the function of a protein. Now, a new paper reinforces the problem of protein evolution.

One approach to studying how evolution could create new protein designs is to start with some sort of random sequence of amino acids, see how well it works, and try to evolve it to obtain a protein. This is difficult because the protein design space is astronomically huge and proteins are sparse within that space. Any random sequence of amino acids will merely give you junk. Furthermore, the fitness landscape is flat and doesn’t provide the guidance evolution needs to move toward functional proteins.

Another approach is to start at the end and work backwards. In other words, start with the finished product—a functional protein—and see what the fitness landscape looks like as you swap in different amino acids. This is difficult because, unfortunately for evolution, the fitness landscape drops off precipitously as you move away from the native protein design. Modifying only a few percent of the amino acids leads to a rapid loss of function.

The new paper takes this second approach. It uses a bioluminescent protein known as the green fluorescent protein, taken from the jellyfish, Aequorea victoria. It is a wonderful study that systematically mapped out the protein’s function (as measured by the protein’s fluorescence) for a total of 51,715 different protein sequences that are nearby the native sequence.

The results confirmed what earlier studies had indicated: the protein function drops off dramatically with only a relatively small number of substitutions. But the study also explored the effect of multiple substitutions. It is well known that the effect of two substitutions, for example, are not always simply the sum of their individual effects. They can interact with each other in either positive or negative ways. This is referred to as epistasis.

The new study found that negative epistasis was strong and prevalent. As one of the researchers explained:

We were really surprised when we finally had a chance to look at exactly how the interactions between mutations occur. We also did not expect that almost all the mutations that are only slightly damaging on their own can destroy fluorescence completely when combined together.

It was well understood that evolving a protein is an astronomically unlikely event, and these results indicate it is even more difficult. Those negative results, however, were not reported in the paper. Instead, the paper discussed possible ways that one green fluorescent protein, found in one particular species, may have evolved into other green fluorescent proteins, found in other species. The implications for the initial evolution of a protein were ignored.

The Origin of Life=the origin of information?

 Information and Life’s Origin — A Retrospective View


In the late 1980s, I first encountered the science of information theory and its application to theories of the origin of life. My introduction to the subject was a book, Origins and Destiny1, by research scientist Robert Gange. He described the idea of a generalized form of the traditional Second Law of Thermodynamics, based on quantum statistical mechanics. In conjunction with the understanding that the formation of life from non-life constitutes a rise in specified complexity rather than increasing order, this generalized Second Law raised a theoretical barrier against any natural origin of life scenario.

The traditional Second Law of Thermodynamics is viewed as an inviolable arbiter of possible outcomes for all physical processes. In particular, any conceivable proposal for a perpetual motion machine can, without analysis, be rejected based on the Second Law. With regars to the origin and development of life, the generalized Second Law states that any “alleged natural explanation…will be untrue in the same way a patent examiner in Washington, DC, knows an alleged invention for a perpetual motion machine is untrue.”2

A Postdoc Wonders

As a young postdoctoral researcher in physics, I wondered why the quantum statistical version of the Second Law wasn’t more widely recognized as an aspect of physical reality that limited any proposed natural mechanism for the origin of life. However, since the background physics of the generalized Second Law is typically buried in graduate-level texts on quantum statistical mechanics, perhaps its low visibility isn’t surprising.

Since my own physics research trajectory took me from experimental plasma physics to integrated optics to computational nano-electronics, my professional work did not directly intersect with research on the physical aspects of information theory. However, my personal interest in seeing how evidence for intelligent design held up to scientific advances kept my attention focused on relevant developments in cosmology and molecular biology.

In the early 1990s, the graduate library at the University of Washington provided access to research articles by Hubert Yockey on the application of information theory to the origin of life. Noting that “The information content of amino acid sequences cannot increase until a genetic code with an adaptor function has appeared,” Yockey states,

Nothing which even vaguely resembles a code exists in the physico-chemical world. One must conclude that no valid scientific explanation of the origin of life exists at present.3

Unlocking Life’s Enigma

By the mid 1990s, I had read The Mystery of Life’s Origin4, in which the authors distinguish between thermal entropy (related to the distribution of energy in the system), and configurational entropy (related to the distribution of mass — for example, the specific sequence of amino acids comprising a protein). Their analysis of multiple proposals for natural mechanisms to overcome the thermodynamic barrier represented by the high degree of configurational entropy in living systems led them to conclude that all such mechanisms are “clearly inadequate to account for the configurational entropy work of coding.”5

In the documentary video “Unlocking the Mystery of Life,” the premise of intelligent design was cogently defended as an alternative to the shortcomings of naturalism to explain such biochemical enigmas as irreducible complexity and the specific sequences of amino acids comprising functional proteins. The latter example of nature’s inability to increase the information content of a closed system over time led biophysicist Dean Kenyon to disavow his own research, published earlier in his textbook, Biochemical Predestination.

In the late 1990s, my academic schedule allowed me to pursue other source material on the physics of the generalized Second Law, and I obtained copies of two main textbooks on statistical mechanics referenced by Gange. The author of one of these texts gives a fundamental definition of information that emphasizes the relationship between information and the mind:

Information is the entity which makes the difference between knowing and not knowing, between being faced with a number of possibilities and between knowing the one that actually prevails.6

Only in the context of the mind is the difference between knowing and not knowing a meaningful distinction. The author of the other text, Arthur Hobson, affirms that given an initial measurement of a system, predictions of the system at a later time “cannot contain more information (but may contain less information)” than the initial data describing the system.7 This limitation on natural processes, based upon the laws of quantum mechanics, prohibits a system (even the entire universe bounded by the cosmic horizon) from progressing from a state of lower information (pre-life) to a state of higher information (post-life) by any combination of natural forces.

Chance and Necessity

William Dembski affirms the proscriptions of the generalized Second Law by showing that chance and necessity are insufficient to ratchet up the complex specified information (CSI) content of a closed system over time:

What natural causes cannot do, however, is originate CSI. This strong proscriptive claim, that natural causes can only transmit CSI but never originate it, I call the Law of Conservation of Information. It is this law that gives definite scientific content to the claim that CSI is intelligently caused.8

In 2005, while mentoring a senior honors student on a study of the boundaries of science, I read Stephen Meyer’s groundbreaking article outlining intelligent design as a source of biological information.9 Complementing the conclusions of other lines of research, Meyer’s analysis and conclusions added to the scientific literature affirming the validity of the generalized Second Law as a fundamental boundary of nature that disallows an unguided origin of life.

Have the last twenty years produced any experimental research demonstrating how unguided natural processes can successfully produce the complex, specified arrangements of components inherent in functional biomolecules? Any dearth of success in this field is not for lack of trying, nor is it surprising that scientists have not been able to coax even a single biochemically relevant protein into existence from a mix of ingredients likely to be available on the early Earth. 

The Limits of Unguided Processes

A Rice University professor of chemistry, James Tour, who is renowned for his research in synthetic organic chemistry, draws this conclusion regarding any naturalistic origin-of-life scenario:

the requisite molecules (lipids, proteins, nucleic acids, and carbohydrates) are so unlikely to have occurred in the states and quantities needed, that we could never have gotten to the point of figuring out the genesis of the requisite code or information.10

Unguided natural processes, according to the generalized Second Law, cannot systematically increase the information content of a closed system over time. Since the origin of life, represented by the formation of a single-cell organism, constitutes just such an increase in information, natural processes are not expected to be the cause. Intelligence is the only recognized source of information, as inherent in living organisms. What we know of the laws of physics supports this conclusion.

Notes

Robert Gange, Origins and Destiny (Waco, Texas: Word Books, 1986).

Gange, Origins, (1986), 91.

Hubert P. Yockey, “Self Organization Origin of Life Scenarios and Information Theory,” J. Theor. Biol. 91 (1981), 13-31.

Charles B. Thaxton, Walter L. Bradley, and Roger L. Olsen, The Mystery of Life’s Origin: Reassessing Current Theories (New York: Philosophical Library, 1984).

Thaxton, et al, Mystery (1984), ch. 8 (available online: https://www.ldolphin.org/mystery/chapt8.html ).

Amnon Katz, Principles of Statistical Mechanics: The Information Theory Approach (San Francisco: W. H. Freeman & Co., 1967), 14.

Arthur Hobson, Concepts in Statistical Mechanics (New York: Gordon and Breach Science Publishers, 1971), 142-145.

William A. Dembski, “Intelligent Design as a Theory of Information,” (1997); https://www.discovery.org/a/118/ .

Stephen C. Meyer, “The Origin of Biological Information and the Higher Taxonomic Categories,” Proc. of the Biological Society of Washington, 117(2), (2004), 213-239.

https://www.jmtour.com/personal-topics/evolution-creation/.

Wednesday, 21 June 2023

Before all roads led to Rome.


From the graveyard of empires.


David Berlinski against reductionism


On Reductionism and the meaning of life.

 David Berlinski on the Immaterial, Alan Turing, and the Mystery of Life Itself

Evolution News

The recently published book Science After Babel is again in the spotlight at ID the Future, with its author, philosopher and mathematician David Berlinski, and host Andrew McDiarmid considering various elements of the work. In a new podcast, the pair discuss the puzzling relationship between purely immaterial mathematical concepts (the only kind) and the material world; World War II codebreaker and computing pioneer Alan Turing, depicted in the 2014 film The Imitation Game; and the sense that the field of physics, once seemingly on the cusp of a theory of everything, finds itself at an impasse. Then, too, Berlinski writes, there is the mystery of life itself. If scientists thought that its origin and nature would soon yield to scientific reductionism, they have been disappointed. Life’s “fantastic and controlled complexity, its brilliant inventiveness and diversity, its sheer difference from anything else in this or any other world” remain before us, suggesting, as Berlinski puts it, “a kind of intelligence evident nowhere else.” Download the podcast or listen to it here.

The rise and fall of ancient Egypt.


Sorry design denier that's my line.

 We Can Say It, But You Can’t


Highly, Intricately, and Precisely Integrated Networks of Entities and Interactions

As Carl Woese explained in 2004:


The cells we know are not just loosely coupled arrangements of quasi-independent modules. They are highly, intricately, and precisely integrated networks of entities and interactions. … To think that a new cell design can be created more or less haphazardly from chunks of other modern cell designs is just another fallacy born of a mechanistic, reductionist view of the organism.


Mechanistic, reductionist view? It appears Woese put his finger on precisely what he believed in: evolution. Replace “cell” with just about any biological structure and Woese has, in a nutshell, summarized evolutionary theory, what little there is of it. As Richard Dawkins once explained:


The bombardier beetle’s ancestors simply pressed into different service chemicals that already happened to be lying around. That’s often how evolution works.

Monday, 19 June 2023

On Darwin's natural selector.

 Darwinian Natural Selection: A Covert Theology of Nature?

Neil Thomas 

“What is life?” legendary father of quantum physics Erwin Schrödinger asked in 1943, arguing that the essence of life might best be defined as a force and form of agency. The contention appeared to imply an approving nod in the direction of the Lamarckian postulation of an invisible “pouvoir de la vie” (life power); and it is noteworthy that in 1956 Schrödinger went on to express the opinion that “it is difficult to believe that […] all resulted from Darwinian ‘accumulation by chance.’”1 He appeared to be steering a path in his thinking between Darwinian and Lamarckian paradigms, as was noted by Nobel Prize-winner Paul Nurse in his recent, identically titled analysis, What Is Life?2

Conflicting Paradigms

Observing distinct hints of Lamarckism in Schrödinger’s expositions, Nurse even went so far as to suggest that the veteran German scientist had come close to advancing a form of vitalism3 — a conception of animate nature long since banished from scientific discourse for being a residue of prescientific thinking. So for instance In the very early decades of the 17th century Shakespeare could portray an active external nature issuing portents of future misfortune as warnings to humanity. In the dramatist’s imagination Nature was active to such an extent as to be capable of “staging” such meteorological warning signs as thunderstorms and sundry other “horrid sights seen by the watch.” But such stage evocations are interpreted by today’s audiences only as dramatic devices (referred to technically under the name of pathetic fallacy). For hard on Shakespeare’s heels chronologically had come a finger-wagging brigade of mid to late 17th-century natural philosophers exhorting the bard’s intellectual heirs to view nature in considerably less responsive terms as an entirely passive phenomenon. No will or agency should henceforth be attached to natural phenomena, these early scientists insisted, and it was their understanding which was to become an informing axiom of post-Enlightenment science. Lamarck’s ideas of a spirited, self-making, and transforming Nature now seemed out of step with respectable science. Or were they?


Darwin, although he would officially retreat behind the safe and accredited confines of the new nature-as-passive axiom, was also known to flirt with Lamarckian ideas, most conspicuously in his attempt to postulate a link between ape and Homo sapiens. By 1871 Darwin no longer appeared to repose the same absolute faith in natural selection, as a mechanism capable of delivering limitless boons, as he did in the period preceding the publication of the Origin of Species in 1859. In order to put together a tolerably coherent explanation for the ape-to humankind transition, for instance, we find him appealing to what he had once bluntly denounced as the Lamarckian heresy. Hence in his Descent of Man he could write,

The mental powers of some earlier progenitor of man must have been more highly developed than in any existing ape, before even the most imperfect form of speech could have come into use; but we may confidently believe that the continued use and advancement of this power would have reacted on the mind itself, by enabling and encouraging it to carry on long trains of thought.4

The officially frowned-on Lamarckian idea of the use/disuse of organs is here quite conspicuously pressed into service as a helping or even — faute de mieux — necessary adjunct to his own theory of natural selection. 

What Makes Us Tick? 

It was in fact only in the era of neo-Darwinism that Darwin’s intellectual legatees would take it upon themselves to excise any last traces of Darwinian equivocation on this issue. Yet as Stanford history professor Jessica Riskin has pointed out in her The Restless Clock: A History of the Centuries-Old Argument Over What Makes Us Tick (Chicago: University of Chicago Press, 2016), to which I am much indebted for what follows, the issue can hardly be said to be fully resolved even today. Riskin documents the many ways in which the matter of internal versus external agency has remained a live issue up to the present day. Hence even post-Enlightenment accounts of living phenomena can be observed being permeated by officially disallowed appeals to agency (as in Darwin’s case, cited above). The ostensibly losing opinion associated with the name of Lamarck has not been irretrievably lost to modern science.


The crux of the historical issue has been this: Do the order and action which we can all plainly observe in the natural world originate inside or outside of nature itself? Lamarck’s “inside” theory presupposed an immanent force driving plants and animals to form themselves and to “complexify” their structures over time to produce that plethora of different animal species we witness today. Harking back to ideas originally proposed by Denis Diderot and like-minded philosophes in the mid 18th-century, Lamarck proposed that creatures might be able to alter their own internal physiology and, by an act of will, develop such new organs as might be requisite to their purposes in life. His most (in)famous illustration of this claimed ability was the much-cited example of the giraffe over time possessing the ability to elongate its neck to be able to reach leaves at the tops of trees. 


Consistently with the tenets of his own theory of an immanent power in nature, Lamarck was to look askance at the famous watch-on-the heath analogy formulated by William Paley, insisting that the essential motor of the living being was integral to it rather than something coming from an external source. Paley’s watch on a notional Lamarckian heath would not presumably have needed to be periodically wound up by a divine Horologist. In that particular sense, as Riskin observes, Lamarck’s was the more “dangerous” idea since Lamarck posited self-evolving entities without apparent need of an external director. In Lamarck’s vision of things, as Schrödinger put it, “efforts at improvement are not lost in the biological sense but form a small but integrating part of the striving of the species towards higher and ever higher perfection.”5 In short, Lamarck had ostensibly replaced an external God with an inner force. 

Difficulties with History

Riskin makes the further point that Darwin may have been drawn to Lamarck not only pragmatically because Lamarckian ideas could plug cognitive gaps in his own argumentation (as in the example from his Descent of Man cited above) but also on ideological grounds. For despite its associations with antiquated animism, if one reframes the Lamarckian idea in the manner suggested by Riskin one can then see that “Lamarckism represented its era’s most naturalist, nontheological account of species-change.”6 It is a point she develops further by claiming,

The biologists and philosophers of biology of the twentieth and twenty-first centuries who have categorically excluded Lamarckian explanations and all nonrandom variation as beyond the bounds of legitimate science have believed they were expressing a commitment to an ongoing naturalism. But history places them in the opposite camp. In fact, they are the heirs to the tradition with which they meant to do battle: the argument from design.7

Both Darwin and more modern evolutionists essentially hitched their wagons to a tradition that from its early inception denied agency in Nature precisely in order to ascribe it to a designer God. The argument to which Darwin expressed his official allegiance was ab initio and by the express wish of its originators an argument to and from design since “a material world lacking agency assumed, indeed required, a supernatural god.”8 The 17th-century banishment of agency, perception, consciousness, and will from nature and natural science gave a monopoly on all those attributes to an external god: the paradigm simply could not function without “an accompanying theology.”9

Climbing Mount Improbable 

Because the devisers of modern science after circa 1650 banished mysterious agencies to within the exclusive jurisdiction of the Christian God, they left a more atheistically inclined posterity with a considerable dilemma. For the new, mechanistic science was adamant that one could not procure a lens instrument without an instrument maker. By the same token one could not have an eye without a divine Optician (hence Darwin’s famous shudder when he asked himself rather disconsolately how anything of such supreme intricacy as the eye could have been fashioned by natural selection). Darwin, to use the old cricketing cliché, had come out to bat on a decidedly sticky wicket in the larger arena of science. By which I mean that the problem for Darwin appeared to be logically insurmountable given that his quest was to find a purely secular mechanism for evolution without the “accompanying theology” obligatory to the theory as it had been established by its founding fathers in the century immediately preceding the Enlightenment.


If, as science had come to insist, nature was like a clock, a passive mechanism, it must needs be wound up by an external agent. The only vera causa of evolution would on this view have to be a divine one. No wonder that Sir Charles Lyell and others at the time were prompted to ask of Darwin, What agency was he proposing, precisely (if not a divine one)? In what did the creative power in Darwin’s theory consist and what was the driving force (vera causa) of his evolutionary ideas? Darwin’s famous answer was of course “natural selection” but it has perhaps been insufficiently acknowledged (either by Darwin or by his posterity) that this confident answer was to lose much of its force once Darwin had been compelled to confess that his theory of natural selection did not in reality select at all but merely preserved. Belatedly capitulating to colleagues’ numerous objections that natural selection was entirely unlike the “intelligent selection” practised by professional animal breeders, Darwin at that point had to throw in the towel, conceding in a letter to Lyell in 1860,

Talking of “Natural Selection,” if I had to commence de novo, I would have used natural preservation.10

The truly insurmountable obstacle confronting Darwin after that concession was that the term in which he had acquiesced, natural preservation, could by definition be only passive rather than active, so that the formation of new body parts (let alone new species) now became out of the question. As Michael Ruse recently pointed out, natural selection is better understood as a score-recording statistic than as a “true cause” of anything:

Natural selection is simply keeping score, as does the Dow Jones [Industrial] Average. The Dow Jones does not make things (cause things to) happen. It is just statistics about what did happen.11

The trouble with Darwin’s being forced to eat his own words and so revise his original theory so drastically was that notions of evolutionary innovation in terms of new body parts/species seemed now to be logically indefensible since mere preservation, by definition, cannot produce the kind of physiological innovation which could lead from a microbe to a whale (or even to a mouse). So redefined, natural selection cannot create anything at all. Darwin would have had to conclude that, by making this concession, he was being obliged to abandon what he had always thought of as the limitlessly creative force of his own theory. At some level of apprehension, he must have felt forced to accept that natural selection might have little or no motive force at all — a devastating conclusion entirely subversive of his theory (hence his later flirtation with Lamarckism).

Darwin Versus Modern Biological Science

What makes matters worse for Darwin posthumously is that a number of modern researchers have come forward to reinforce the sombre conclusion that (neo-)Darwinism simply has no theory of the generative to commend it since nothing in Darwin’s theory can account for anything bar trivial micromutations.12 The author’s semantic retreat was fatal to any more substantial, macromutational claims. As Professor Nick Lane has more recently explained on the basis of precise observations,

It is generally assumed that once simple life has emerged, it gradually evolves into more complex forms, given the right conditions. But that’s not what happens on Earth […] If simple cells had evolved slowly into more complex ones over billions of years, all kinds of intermediate forms would have existed and some still should. But there are none [….] This means that there is no inevitable trajectory from simple to complex life. Never-ending natural selection, operating on infinite populations of bacteria over millions of years, may never give rise to complexity. Bacteria simply do not have the right [physiological] architecture.13

Darwin’s espousal of the “outside” argument (as opposed to the Lamarckian interior force) makes it unsurprising that he had the gravest difficulty in trying to make his argument entirely secular and free of theistic implications. His aspiration to free his theory from the entangling toils of theology never really came off. His key metaphor of natural selection was in fact recently unmasked as little more than “an anthropomorphic but superhuman agency, ‘daily and hourly scrutinizing’ all variation, and making intelligent and benevolent decisions like a Paleyan Designer.”14 Indeed, according to Darwin’s somewhat hyperbolic evocations, the powers of natural selection transcended human intelligence to such a degree that he appeared to impute to it the capacity for intelligent design. He proposed that Nature, with limitless millennia at her disposal, could do a more comprehensive job of bringing about major physiological changes (and eventually new species) than could any human breeder, however resourceful and intelligent. He gave lyrical, arguably even mystical expression to that conviction in a famous passage in his Origin of Species:

It may metaphorically be said that natural selection is daily and hourly scrutinising, throughout the world, every variation. Even the slightest; rejecting that which is bad, preserving and adding up all that is good; silently and insensibly working, whenever and wherever opportunity offers, at the improvement of each organic being in relation to its organic and inorganic conditions of life. We see nothing of these slow changes in progress, until the hand of time has marked the long lapse of ages, and then so imperfect is our view into long past geological ages, that we only see that the forms of life are now different from what they formerly were.15

The tone of the above passage makes it unsurprising that Bishop Samuel Wilberforce became convinced that Darwin was implicitly ascribing to Nature the same ontological status as his fellow theists customarily ascribed to the Christian God. Darwin’s apparent raising of external nature to crypto-divine status was, concluded Wilberforce, just as much an article of faith as any of the more conventional forms of theistic allegiance available to him. Wilberforce (who was not alone in coming to this conclusion) surely had a point. Dov Ospovat ascertained in a foundational study some four decades ago that Darwin was often influenced by theological ideas without always recognizing them as theological ideas.16 Darwin did not for instance seem to have questioned why a process he insisted was blind should somehow be automatically in favor of progress. The fact that natural selection was effectively a theory of progressive (arguably even providential) development as much as of ad hoc or merely opportunistic adaptation appears to have been a matter of unquestioned faith for him. As Michael Ruse recently observed, 

Darwin’s theory, like Christianity, takes final cause very seriously. Organisms are not just thrown together; they show purpose — the eye for seeing, the hand for grasping. For the Christian, this was the work of God; for Darwin, of natural selection. This shared perspective is not accidental. Remember how Darwin started with Paley [author of Natural Theology, 1802].17

Squaring the Circle?

It is well enough known that Darwin maintained to the end of his days a significant residue of his earlier Christian faith and that in later years was apt to call himself a Theist (Darwin’s capitalization). There seems, then, to have been an unacknowledged providential dimension lying at the heart of Darwin’s thinking. For in later years he came to harbor the suspicion that there might be, in Thomas Huxley’s phrase, a “wider teleology” in nature’s processes which far exceeded the bounds of natural selection.


Hence it might even be claimed that Darwin’s theory was in an unwitting sense more a special form of Nature mysticism than an empirically demonstrable theory in line with modern demands for testability. Precisely this point was urged more than a century ago by the eminent botanist responsible for pioneering the then new science of Mendelian genetics in Cambridge at the beginning of the twentieth century, F. W. Bateson. Bateson expressed himself entirely dissatisfied with the lack of detail surrounding the term natural selection. He objected that the vagueness of Darwin’s description of natural selection as occurring by insensible and imperceptible stages could not possibly give the slightest hint as to what the precise operative mechanism might consist in. It was, he felt, wholly inadequate to talk in Delphic terms of organisms having “evolved” from simpler systems without supplying any detailed descriptors of what precise physiological modalities may have occasioned such changes.18


Darwin was plainly no doctrinaire atheist in the mold of his grandfather, Erasmus Darwin, and the famous instances of Angst he experienced in grappling with his faith may provide some indication that a “still small voice” was apt to whisper to him that his life’s work might rest on an insecure foundation of questionable assumptions. This would certainly account for some of his more tormented animadversions in the decade preceding his death concerning his riven attitude to the Christian faith. At that later point in his life Darwin appears to have been seriously tempted to return to the Christian fold, at least with one foot. For although he set his face against a once-and-for-all Creation of the Biblical sort, he nevertheless saw in the evolutionary process a force which could bring about the same net result as Divine creation. The prime difference was that this became a series of gradualistic movements in multiple creative phases requiring eons for its completion. Creation for Darwin was simply a continuous process rather than a “one-off.” Those in Britain and America in the latter half of the 19th century who interpreted the essence of Darwinism as being an explanation of evolution in (covertly) theistic terms appear to have had a point.19

Notes

What Is Life? With Mind and Matter and Autobiographical Sketches, with Foreword by Roger Penrose (Cambridge: CUP, 1992), p. 109.

Paul Nurse, What Is Life? (Oxford: Fickling, 2021)

Nurse, What Is Life? p. 189.

The Descent of Man and Selection in Relation to Sex, edited by James Moore and Adrian Desmond (London: Penguin, 2004), p. 110, emphasis added.

Schrödinger, p. 107.

Riskin, p. 363.

Riskin, p. 363

Riskin, p. 4.

Riskin, p. 4

Letter to Charles Lyell, September 1860. https://www.darwinproject.ac.uk/letter/?docId=letters/DCP-LETT-2935.xml

Michael Ruse, Understanding Natural Selection (Cambridge: CUP, 2023), p.133.

Steve Laufmann and Howard Glicksman, Your Designed Body (Seattle: Discovery, 2022), p. 370.

Nick Lane, “Lucky to Be There,” in Michael Brooks (editor), Chance: The Science and Secrets of Luck, Randomness, and Probability (London: Profile/New Scientist, 2015), pp. 22-33, citations pp. 28, 32.

Sander Gliboff, H.G. Bronn, Ernst Haeckel and the Origins of German Darwinism: A Study in Translation and Transformation (Cambridge, Massachusetts: MIT Press, 2008), p. 136.

Origin of Species, edited by Gillian Beer (Oxford: OUP, 2008), p. 66.

Dov Ospovat, The Development of Darwin’s Theory: Natural History, Natural Theology and Natural Selection 1839-1859, 2nd edition (Cambridge: CUP, 1995), especially pp. 207-12.

Michael Ruse, Evolution and Christianity (Cambridge: CUP, 2022), p. 60.

Bateson’s objection has been taken up by Neil Broom, How Blind is the Watchmaker? Nature’s Design and the Limits of Naturalistic Science(Downers Grove and Leicester: Intervarsity Press, 2001) p. 39, note.

See James R. Moore, The Post-Darwinian Controversies: A Study of the Protestant Struggle to Come to Terms with Darwin in Great Britain and America, 1870-1900 (Cambridge: CUP, 1981).