BERNARD MACHINES IN THE TINKERER’S ACCOMPLICE BOOK

November 26, 2007 at 11:06 am | Posted in Books, Philosophy, Research, Science & Technology | Leave a comment

 

THE TINKERER’S ACCOMPLICE

 

THE TINKERER’S ACCOMPLICE:

 

“I also introduce an important conceptual tool – the Bernard machine – named for the great French physiologist Claude Bernard, who first pointed to homeostasis as a central feature of living systems. Bernard machines are agents of homeostasis, and I discuss how design emerges from the action of Bernard machines that create new environments and impose homeostasis on them. Generation of design by Bernard machines contrasts in some fundamental ways from the Darwinist explanation for design, in which good design arises from selection for “good function genes.”

 

Most people, when they contemplate the living world, conclude that it is a designed place. So it is jarring when biologists come along and say this is all wrong. What most people see as design, they say—purposeful, directed, even intelligent—is only an illusion, something cooked up in a mind that is eager to see purpose where none exists. In these days of increasingly assertive challenges to Darwinism, the question becomes acute: is our perception of design simply a mental figment, or is there something deeper at work?

 

Physiologist Scott Turner argues eloquently and convincingly that the apparent design we see in the living world only makes sense when we add to Darwin’s towering achievement the dimension that much modern molecular biology has left on the gene-splicing floor: the dynamic interaction between living organisms and their environment. Only when we add environmental physiology to natural selection can we begin to understand the beautiful fit between the form life takes and how life works.

 

In The Tinkerer’s Accomplice, Scott Turner takes up the question of design as a very real problem in biology; his solution poses challenges to all sides in this critical debate.

 

From the Prologue …

 

This book is about why organisms work well, or to put it another way, why they seem to be “designed.”

 

Before I elaborate, I should mention two things the book is not. First, it is not about Intelligent Design (ID). Although I touch upon ID obliquely from time-to-time, I do so not because I endorse it, but because it is mostly unavoidable. ID theory is essentially warmed-over natural theology, but there is, at its core, a serious point that deserves serious attention. Before your hackles rise too much, let me hasten to say that the serious point is not the one that ID enthusiasts would like it to be. ID theory would like us to believe that some overarching intelligence lurks at the heart of the evolutionary process: to say the least, that is unlikely. Nevertheless, how design arises remains a very real problem in biology. This would be a good point to note the second thing the book is not: it is not a critique of Darwinism, which, as Dr Seuss might have put it, is about as true as any thought that has ever been thunk.[1]

 

Which brings us back to what this book is about …

 

My thesis is quite simple: organisms are designed not so much because natural selection of particular genes has made them that way, but because agents of homeostasis build them that way. These agents’ modus operandi is to construct environments upon which homeostasis can be imposed, and design is the result. This is largely the same idea I applied to the problem of animal-built structures in The Extended Organism, but here the focus is on more conventional “inside-the-skin” physiology. We do venture outside the skin, though, to explore what the link between homeostasis and design might mean for how we think about evolution.

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[1] The Glunk that got Thunk from Dr Seuss (1969). I Can Lick 30 Tigers Today!

 

Chapter summaries:

 

Chapter 1. Cleanthes’ dilemma

Chapter 2. Bernard machines

Chapter 3. The joy of socks

 

Chapter 4. Blood river

 

Chapter 5. Knowledgeable bones

 

Chapter 6. Embryonic origami

 

Chapter 7. A gut feeling

 

Chapter 8. An intentional aside

 

Chapter 9. Points of light

 

Chapter 10. Pygmalion’s gift

 

Chapter 11. Biology’s bright lines

Chapter 1. Cleanthes’ dilemma

 

The first chapter introduces the book’s theme, which is to resolve a seeming contradiction in current evolutionary biology. On the one hand, the living world appears to be a designed place, in which there is seeming foresight, intelligence, and craftsmanship in the structure and function of organisms. On the other hand, our modern conceptions of evolution do not admit concepts seemingly essential to design, like planning and foresight. This issue has traditionally been resolved by likening evolution to “tinkering”, the cobbling together of contrived solutions to immediate adaptive problems, most of which fail, but some of which work and are naturally selected. This “solution” to the problem is unsatisfactory, though, because it cannot be used to resolve the essential difference between a structure that is designed versus one that is only “apparently designed.” I illustrate this through a discussion of the “evolution” of packaging of frozen orange juice. I conclude with the theme that will be developed in the book, namely that the tinkerer needs an accomplice, to wit, the physiological mechanisms which integrate genome and phenotype into an integrated and well-functioning whole.

 

Chapter 2. Bernard machines

 

In Chapter 2, I sketch out the working theory for design that I will develop in the book. It is a personal chapter, telling how I came across the remarkable structures built by the fungus-growing termites of southern Africa, and some of the trials and tribulations I faced in trying to understand how these structures act as designed organs of physiology. I outline several crucial concepts that will be developed later in the book, including the concept of embodied physiology: dynamic structures that can be shaped to adjust to physiological demands. I also introduce an important conceptual tool – the Bernard machine – named for the great French physiologist Claude Bernard, who first pointed to homeostasis as a central feature of living systems. Bernard machines are agents of homeostasis, and I discuss how design emerges from the action of Bernard machines that create new environments and impose homeostasis on them. Generation of design by Bernard machines contrasts in some fundamental ways from the Darwinist explanation for design, in which good design arises from selection for “good function genes.”

 

Chapter 3. The joy of socks

 

Multicellular organisms are held together by webs of fibrous proteins known collectively as the connective tissue. Connective tissue is not simply a collection of collagen fibers; it is a dynamic living system that is continually being remodeled by agents of homeostasis, fibroblasts in this instance. These cells weave and continually re-weave webs of collagen, seemingly to the end of regulating tension in the fibers. When tension in collagen fibers falls outside of set limits, remodeling of the collagen network ensues: excessive strain prompts adding fibers, while unstrained fibers tend to be pruned. At the organism scale, this tension homeostasis produces highly organized collagen meshworks, cable-like tendons connecting muscles to bone, or “socks” of collagen fibers that envelop the body in helically-wound wraps. The interesting twist here is how a supposedly conservative force like homeostasis can nevertheless generate functional versatility, as reflected in the diversity of helical windings of collagen fibers that are found among animals.

 

Chapter 4. Blood river

 

The vascular systems of vertebrates seem to be very well-designed, constructed to minimize work of transport while maximizing efficiency of exchange. The arterial system is a good example of a “self-designed” structure, in which broad patterns of development are influenced by local feedback controls which sense and regulate the local flow environment. This chapter explores the principles behind such “self-designed” systems, and explores the specific mechanisms that generate and adjust the architecture of the vertebrate arterial vascular system. The chapter also traces the genesis of a “well-designed” vascular system during embryogenesis, and makes the point that the embryo must make two tries at building its circulatory system. The first, genetically driven try, produces a basic layout that is nevertheless a poorly designed system. The second try, which produces a well-designed system, is the product of endothelial cells acting as agents of homeostasis, modifying their environment to produce a “comfortable” strain environment throughout the system.

 

Chapter 5. Knowledgeable bones

 

Skeletal structures show many features of optimal design, for example in the dimensions of bones. Bones are also dynamically constructed by networks of embedded cells known as osteocytes, derived from the same lineage as fibroblasts. Like fibroblasts, osteocytes are exquisitely sensitive to the strain environment, and they can act as Bernard machines, adjusting architecture to maintain strains within set limits. Bone design is the product of an ecological interaction between the osteocytic agents of homeostasis and another cell line, osteoclasts, which act as agents of disturbance. Bone design is something more, though, because bone strains are actively monitored by the central nervous system, which can feed back and alter bone structure in seemingly intentional ways. This is illustrated by the phenomenon of shape memory in antlers, in which a well-designed osseous structure, antlers, are grown anew each year, yet are not “trained by strain” as locomotory bones are. This means that bone design is under a form of intentional control by the nervous system.

 

Chapter 6. Embryonic origami

 

This chapter takes up the question: what is it that makes animals uniquely adaptable creatures? I argue that the real innovation that sets apart animals from other creatures is not their unique embryogenesis, as many have argued, but the invention of the epithelium. Organizing cells into epithelial sheets enables assemblages of cells to impose homeostasis on environments at a massive scale, a capability that evades single-celled and other multicultural creatures that lack epithelia. Among other things, this gives a rationale for the complicated folding maneuvers – embryonic origami – that characterizes animal embryogenesis. Using the evolution of the unique body forms of the Precambrian Vendozoa and Ediacaran animals, I argue that epithelia conferred a kind of “value-added” physiology that has propelled the animals on their spectacular evolutionary arc.

 

Chapter 7. A gut feeling

 

Intestines and digestive systems are a major epithelium-delimited interface between an organism and its environment. The space contained within the intestine is also an important site of imposed environmental homeostasis. As bones and circulatory systems do, intestines have objectively definable attributes of good design, which they often meet. Remarkably, the genetic determinants of gut architecture do not produce a structure that functions well. Gut architecture is brought to good design by agents of homeostasis that rebuild the genetically-determined foundation structure. Unlike bones and circulatory systems, however, optimal guts are restructured by an interaction with a “foreign” agency, a “bottom-up” control by the microbial communities within the gut. Good design of intestinal systems, therefore, subverts the pursuit of disparate genetic interests to the support of common physiological interests, a “physiological conspiracy” that subverts the “top-down” control of architecture by the organism’s genes.

 

Chapter 8. An intentional aside

 

The distinction between design and “apparent design” reflects a broader philosophical question, namely the proper place of doctrines of ends and purposes – teleology – in biology. That biologists draw the distinction between actual and apparent design is therefore as much a philosophical question as it is a scientific one. This chapter considers the philosophical roots of the problem of teleology, and outlines some of the historical framework behind modern biology’s rejection of it. I argue that biology has rightly divorced itself from teleological interpretations of biological history – evolution, but that rejecting it for the adaptation that drives the process of evolution may have been less wise. Our common way to divorce teleology from biological design has been to distinguish between the “good” teleology of physiological systems, which lack intention or foresight, and the “bad” teleology of forward-looking intentional systems. These distinctions are not really useful, however, and they have been drawn mostly as a way of avoiding, rather than confronting, the uncomfortable question of purposefulness in biology,. In the absence of any robust distinctions between “good” and “bad” teleology, the main legacy of the division has been to divide biology into a series of independent subdisciplines, not the unified science it should be.

 

Chapter 9. Points of light

 

Homeostasis often involves managing flows of matter and energy, but it also involves managing flow of information. Animals are among the most sophisticated managers of information, and they are able to do so largely because of another aspect of the “value-added” physiology conferred by epithelia. Most sensory structures are based upon sheets of cells that map information about the three-dimensional world onto two dimensional images, which are then used to reconstruct a mental representation of the “real world.” I explore this process using the mammalian visual system, introducing the principle that vision is built upon “many retinas”, multiple representations of the world built upon sensible sheets of cells in the eyes, diencephalon and cerebral cortex. I argue that the real design problem for eyes is not their marvelous optical contrivances, as Victorian critics and supporters of Darwinism supposed, but in the complex computational architecture of vision. Remarkably, this architecture is largely a product of assemblages of competing and cooperating cells, striving for stability in a complex “brain ecosystem.”

 

Chapter 10. Pygmalion’s gift

 

Intentionality is at the heart of the phenomenon of biological design. This chapter looks at the neural architecture of intentionality, with the aim of answering the question: how could unintentional purposeless natural selection produce intentional purposeful beings like us? I pose the question in terms of a metaphor: is cognition computation or is it ecology? I explore this in the framework of understanding various cognitive deficits, like addiction and schizophrenia. These all point to the conclusion that cognition is, at root, a phenomenon of brain ecology more than the product of a brain “supercomputer.” Cognition has evolved because there is selective value in the cognitive brain ecosystem building accurate mental representations of the world. Intentionality is the process of cognition in reverse, driven by brain homeostasis. New mental images of the world can arise without reference to the “real world”, which sets up a disparity between the mental world and the sensory representation of the “real world.” Intentionality is a form of homeostasis where the world is manipulated to bring it into conformity with the brain’s novel mental representation of it, actively “making a future happen.” I conclude by suggesting that the divorce of Darwinism from frank intentionality may have been a mistake, and that Darwinism can become a fully credible theory of evolution only if it embraces intentionality again.

 

Chapter 11. Biology’s bright lines

 

This chapter deals with the “bright lines” that divide modern biology into multiple disciplines – molecular, physiological, zoological, botanical, and so forth – and explores why they exist. The principal thesis advanced here is that the fracturing of biology is a consequence of an essentially atomist mind-set that places “atoms of heredity” – genes – as the central players in evolution and physiology. This chapter reviews various new findings on the nature of the gene and the challenges these new findings pose for biology’s central dogma: that “function radiates like light from the central sun of DNA.” The chapter introduces the crucial concept of “persistors”, physiologically competent environments, which are the physiological counterpart to replicators. The chapter also introduces the hypothesis that evolution plays out not as a selection of replicators, but as interplay between persistors and replicators. The chapter contains several examples to illustrate these concepts, ranging from prion-like replication factors to broad scale modifications of the environment by termites that serves as a kind of ecological inheritance that complements the genetic inheritance through lineages.

 

Comment on The Tinkerer’s Accomplice, Chapter 2. Bernard machines.

 

Claude Bernard in “The Brothers Karamazov”/Dostoyevsky

 

(“It’s chemistry, brother, all chemistry!

 

What can you do?… move over a bit and make room for chemistry!”)

 

But by far the most fascinating passage occurs in “The Brothers Karamazov,” Book 11, Chapter iv, “A Hymn and a Secret,” in a conversation between Dmitry and Alyosha. On the eve of the trial the opportunistic Rakitin visits Dmitry’s cell in order to collect some information for an article which he is writing, one that he hopes will establish his career. Alyosha’s arrival hastens Rakitin’s departure. Thereupon Dmitry suddenly asks his brother, “Who was Karl Bernard?” Alyosha can’t answer, even after Dmitry gets the name (and the nationality) right. Dmitry replies:

 

‘Well, damn him, then! I don’t know either… A scoundrel of some sort, most likely. They are all scoundrels. And Rakitin will make his way. Rakitin will get on anywhere; he is another Bernard. Ugh, these Bernards! They are all over the place.’

 

‘Just imagine: inside here, in the nerves, inside the head, that is, these nerves are inside the brain (devil take them!)… there are a kind of little tails, the nerves have little tails, and as soon as they begin to quiver… that is, you see, say that I look at something with my eyes, like so, and they start to quiver, these little tails… and as soon as they do, then an image appears, not immediately, but after an instant or so, a second passes, and there appears something like a moment, that is not a moment (devil take the moment) –but an image, that is an object or an event, devil take ’em, and that’s why I perceive and then think… because of those little tails, and not because I have a soul or that I am some sort of image and likeness — all that’s nonsense! Mikhail [Rakitin] explained all of this to me yesterday, and it really overwhelmed me. It’s magnificent, Alyosha, this science! A new man is emerging — that I understand… And yet, I feel sorry for God.’

 

Dmitry appears to be completely persuaded by Rakitin’s rhetoric (“It’s chemistry, brother, all chemistry! What can you do?… move over a bit and make room for chemistry!”) The vision appears to be magnificent: science is the future and a new man will emerge. Here Dmitry echoes the rhetoric of the enemy — for Rakitin is in the same camp with the Devil, Brother Ivan, Kolya Krasotkin, and a host of others. Indeed, the passage reaches a climax not unlike that in Ivan’s nightmare where it was Lyell’s geology instead of Bernard’s physiology which was threatening the idea of God, the soul, and immortality (man as “image and likeness”) and which would result in the emergence of the new man, the mangod, destined to rule the earth through science and will. Dmitry has arrived at exactly the same conclusion, having come under the spell of the new ideology through Rakitin’s original interpretation of Claude Bernard’s physiology.

The Tinkerer’s Accomplice: How

Design Emerges from Life Itself

J. Scott Turner (Author)

Product Details:

* Hardcover: 304 pages

* Publisher: Harvard University Press (January 1, 2007)

* Language: English

* ISBN-10: 0674023536

* ISBN-13: 978-0674023536