Intelligent Design, The Science of it All

Something New to Contemplate

Something New to Contemplate

It is only recently that some defenders of evolution have tried to divorce the origin of life from consideration.  It is probably because the hope of finding an answer is rapidly fading, as one scientific discovery after another of sophisticated machinery in even the simplest living cells makes the problem of a naturalistic origin ever more difficult.  Popular articles on origin-of-life research have often portrayed the field as constantly advancing and quickly converging on a purely Materialistic Naturalism explanation for the origin of the first autonomous cell.  This creates an important proposition that atheists must believe.  That is life came from non-living chemicals, a process called chemical evolution or abiogenesis (Abiogenesis, biopoiesis, or informally, the origin of life, is the natural process by which life arises from non-living matter, such as simple organic compounds.)  Every so often, the lame stream media headlines trumpet the latest and greatest solution, even though specialists in the area know that they are not even close to solving this problem.  Moreover, they never ask, why is this theory replacing the other theory that we highlighted and headlined a year or so ago.

Common arguments about the origin of life have traditionally focused on the unlikelihood of life forming by chance.  I myself have promoted this concept and of course have had others say, “It just had to happen once” as naive as that statement is.  Perhaps most famously, physicist Fred Hoyle calculated the probability of a cell coalescing to be roughly 1 part in 10 to the power of 40,000.  He compared this probability to the chances of a tornado plowing through a junkyard and assembling a jet airplane.  Now, I am not happy with that analogy because it takes us away from the concept of a cell that we should be dealing with.  So let us go with the smallest human protein which is made up of 44 amino acids (Human protein Q6YH21, a collagen-like molecule associated with acetylcholinesterase in skeletal muscle, has a variant gene NM_080542, which encodes for the shortest protein in the human body).  If we have 20 of each of these 44 amino acids floating in a solution it would be similar to these 880 amino acids suspended in Lake Erie (to want to make it turbulent).  Well, not quite, we need to shorten it by about 2 square miles.  Lake Erie is 116 cubic miles in volume, so that comes out to 1.277 x 10^24 gallons or 1,277,295,890,000,000,000,000,000 gallons.  So cut out 6 cubic miles and redo the math.  In addition, we would want these amino acids to randomly form together so the lake has a lot of waves and currents and tides.  The interesting thing is we are assuming that the necessary molecules have already formed into the amino acids and that the protein molecule will form randomly and properly and be folded correctly into this protein.  This event happens hundreds of thousands of times every minute within each cell of your body.

It is possible, we might get a protein to form, but it is highly improbable.  Plain and simple. So you understand the difference between possibility and probability now?

 

Closely linked to  the concept of probability is that of entropy, since probability is proportional to the number of configurations (N) in which some state could occur, and entropy is proportional to the log of N.  As an example, the number of ways water molecules can arrange themselves in the solid state is much smaller than the number ways in the liquid or gas states, so ice is the state with the lowest entropy.  Due to this connection, the probability argument is restated that nature tends to move from states of lower entropy to higher entropy, which simply means that nature moves towards states that are highly probable.  This tendency is known as the second law of thermodynamics.

Analogously, some systems do, in fact, naturally move from states of higher entropy to those of lower entropy (i.e., seemingly low probability) if the lower-entropy states are highly biased to occur.  Such a bias is created by a second driving tendency.  Namely, nature tends to move from states of higher energy to those of lower energy.  For instance, rocks roll downhill, since lower altitude corresponds to lower gravitational energy.  Likewise, molecules of water attract each other, so ice is a lower energy state than water or gas as a result of more hydrogen bonds forming on average between neighboring molecules. At low enough temperatures, this attraction overcomes the tendency to move toward higher entropy resulting in water freezing.  We will come back to the  water later.

Jeremy England, a physicist from MIT had a brainstorm of an idea that life is very good at increasing the entropy of its surroundings: life absorbs energy and dissipates it as heat, and this by definition increases the surroundings’ entropy. In addition, of course, if something can self-replicate, then it will generate more energy dissipaters.

However, even in these cases of locally decreasing entropy, the second law of thermodynamics is not violated, for the changes are always exothermic — heat is released. The heat leaving the local system (e.g., a cup of freezing water) and entering the surrounding environment increases the latter’s entropy by an amount greater than the entropy decrease of the local system. Therefore, the total entropy of the universe increases. The problem for all theories of origin of life now becomes quite evident. The simplest functional cell compared to its most basic building blocks has both lower entropy and higher energy.

Natural systems never both decrease in entropy and increase in energy at the same time.  Therefore, the origin of life through purely natural processes would seem as implausible as water on a hot summer day spontaneously freezing or a river flowing unaided uphill for thousands of miles.  Physicists and chemists (in order to try to explain what they cannot calculate) often combine entropy and energy (or enthalpy) together into what is called the free energy of a system. The change of free energy is always negative for spontaneous changes (e.g., wood burning or ice melting in summer), and it directly relates to the total increase in entropy of the universe.  The challenge for the origin of life is then explaining how billions of atoms could spontaneously come together into a state of significantly higher free energy.

Various calculations have been done, all using different variables and the probability has always been essentially zero.  At face value, this thermodynamic analysis for the origin of life would seem to negate any possible materialistic solution to the problem.  Theorists have long recognized one remaining loophole (but remember, these are theorists- a person concerned with the theoretical aspects of a subject).

Most calculations have assumed that the system was in a state near equilibrium.  However, many argue that the origin of life took place in a system strongly driven away from equilibrium.  This would be a pond subjected to intense sunlight or the bottom of the ocean near a hydrothermal vent flooding with its surroundings superheated water and high-energy chemicals.  These settings are commonly referred to as non-equilibrium dissipative systems.  Their common characteristic is that classical thermodynamics breaks down, so the previous analyses do not completely hold.  Instead, principles of non-equilibrium thermodynamics must be applied, which are far more complex and less well understood.  Moreover, the energy from these outside sources is hoped to enable the free-energy barrier to be overcome.  Therefore, scientists are relying on less than scientific methods to prove their points.

However, such appeals to non-equilibrium systems do little to solve the basic thermodynamic problems.  First, no system could be maintained far from equilibrium for more than a limited amount of time. Any progress made toward forming a cell would be lost as the system reverted toward equilibrium (lower free energy) and thus away from any state approaching life.

This has been extensively promoted as a ‘groundbreaking idea’ about why we have life.  Despite the hype, nothing is being offered to explain how life could have evolved from lifeless chemicals; still a massive unsolved hurdle.

The input of raw solar, thermal or other forms of energy actually increase the entropy of the system, thus moving it in the wrong direction.  For instance, the ultraviolet light from the sun or heat from hydrothermal vents would be more likely to break apart  complex chemical structures than form them.

In non-equilibrium systems the differences in temperature, concentrations, and other variables act as thermodynamic forces which drive heat transfer, diffusion, and other thermodynamic flows. These flows create microscopic sources of entropy production, again moving the system away from any reduced-entropy state associated with life. In short, the processes occurring in non-equilibrium systems, as in their near-equilibrium counterparts, generally do the opposite of what is actually needed.

Next article –>

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Didja Know

Scientific American Founding

From http://creation.com/15-ways-to-refute-materialistic-bigotry

Scientific American’s foundation

Scientific American is a semi-popular journal which publishes attractively illustrated and fairly detailed, but not overly technical, articles, mostly on science. It is not a peer-reviewed journal like Nature or Journal of Creation, but many of its articles are very useful. Scientific American was founded by the artist and inventor Rufus Porter (1792–1884), who thought that science glorified the creator God. In the very first issue, his editorial stated:

‘We shall advocate the pure Christian religion, without favouring any particular sect …’

And he wrote an article ‘Rational Religion’, where he wrote:

‘First, then, let us, as rational creatures, be ever ready to acknowledge God as our Creator and daily Preserver; and that we are each of us individually dependant on his special care and good will towards us, in supporting the wonderful action of nature which constitutes our existence; and in preserving us from the casualties, to which our complicated and delicate structure is liable. Let us also, knowing our entire dependence on Divine Benevolence, as rational creatures, do ourselves the honor to express personally and frequently, our thanks to him for his goodness; and to present our petitions to Him for the favours which we constantly require. This course is rational, even without the aid of revelation: but being specially invited to this course, by the divine word, and assured of the readiness of our Creator to answer our prayers and recognize our thanks, it is truly surprising that any rational being, who has ever read the inspired writings should willingly forego this privilege, or should be ashamed to be seen engaged in this rational employment, or to have it known that he practices it.’

Since Porter, Scientific American has had only six editors in chief, and the most recent two have diametrically opposed their founder’s original vision. Now, as will be explained further in this article, Scientific American works to push an atheistic world view in the guise of ‘science’, and a number of corollaries such as a radical pro-abortion, human cloning and population control agenda. The previous editor, Jonathan Piel, refused to hire Forrest Mims III when Mims admitted he was a creationist, and when Piel asked Mims whether he was pro-life, Mims replied, ‘Of course—aren’t you glad your mother was?’ Piel admitted that Mims’ work was ‘fabulous’, ‘great’ and ‘first rate’, and ‘should be published somewhere’. Scientific American subsequently published an article about his revolutionary atmospheric haze detector (see Revolutionary Atmospheric Invention by Victim of Anti-creationist Discrimination).

Didja Know, Philosophy

Lilliputian science

Lilliputian science

Darwinian evolution is being pushed to its limits by discoveries in biochemistry. Biochemistry is the study of the very basis of life: the molecules that make up cells and tissues, which catalyze the chemical reactions of digestion, photosynthesis, immunity, and more.  Biochemistry includes all of the sciences that investigate life at the molecular level, even if the science is accomplished in a department with another name, such as molecular biology, genetics, or embryology.

The astonishing progress made by biochemistry since the mid-1950s is a tribute to science’s power to understand the world.  It has brought many practical benefits in medicine and agriculture (and several potential horrors).  Our knowledge may exact a price on our society because it seems to be advancing faster than our moral and legal system can handle.

When sciences such as physics finally discovered their basic foundations, old ways of understanding the world had to be reexamined, extensively revised, or restricted to a limited part of nature.  Can this also happen to the theory of evolution by natural selection?

Darwin’s idea is very simple. He observed that there is variation in all species: some members are bigger, some smaller, some faster, some come have different colors, and so on. He reasoned that since limited food supplies could not support all organisms that are born, the ones whose chance variation gave them an advantage in the struggle for life would tend to survive and reproduce.  The others would eventually be outcompeted for the necessities and fade away or die off.  If the particular variation that occurred were to be passed on in the next reproduction cycle, then the characteristics of the species might change over time; over great periods, great changes supposedly could occur.

For about 150 years now, most scientists have thought that virtually all of life, or at least all of its most interesting features, resulted from natural selection working on random variation. Very little thought to how these interesting new features fit into the existing or changing environment better that the original ones did- but that was for later thinkers.  Darwin’s idea has been used to explain finch beaks and horse hoofs, moth coloration and insect slaves, and the distribution of life around the globe and through the ages.  There is nothing— no organ or idea, no sense or thought— that has not been the subject of evolutionary introspection.

Almost a century and a half after Darwin proposed his theory; evolutionary biology has had much success in accounting for patterns of life we see around us.  For many, this triumph seems complete- the theory covers everything.  However, the real work of life does not happen at the level of the whole animal or organ; it is difficult to see the most important parts of living things because they are too small.  Life is lived in the details.  The molecules actually handle life’s details.

Shortly after 1950 science advanced to the point where it could determine the shapes and properties of a few of the molecules that make up living organisms.  Slowly, painstakingly, the structures of more and more biological molecules were discovered, and the way they work was inferred from countless experiments.  The cumulative results showed with piercing clarity that life (what makes up you and me) is based on machines— machines made of molecules!

https://www.youtube.com/watch?v=4PKjF7OumYo

In short, highly sophisticated molecular machines control every cellular process. Thus the details of life are finely calibrated, and the machinery of life enormously complex.

Can all of life be fit into Darwin’s theory of evolution?  Because the popular media likes to publish exciting stories, and because some scientists enjoy speculating about how far their discoveries might go, it has been difficult for the public to separate fact from conjecture.  If you get your science knowledge from Bill Nye, Neil DeGrasse Tyson, Richard Dawkins, or Stephen Hawking, I feel for you.  You are being taken on a fanciful ride to nowhere.

To find the real evidence you have to dig into the journals and books published by the scientific community itself.  The scientific literature reports experiments firsthand and the reports are generally free of the flights of fancy that make their way into the spinoffs that follow.  If you search the scientific literature on evolution, and if you focus your search on the question of how molecular machines— the basis of life— developed, you will find complete silence. The complexity of life’s foundation has paralyzed science’s attempt to account for it; molecular machines raise an as-yet-impenetrable barrier to Darwinism’s universal reach.

Evolution is a controversial topic, so it is necessary to address a few basic questions.  Many people think that questioning Darwinian evolution must be equivalent to espousing creationism.  As commonly understood, creationism involves belief in an earth formed only about ten thousand years ago, an interpretation of the Bible that is still very popular.  I greatly respect the work of all the scientists (both secular and Biblical) who study the development and behavior of organisms within an evolutionary framework, and I think that evolutionary biologists have contributed enormously to our understanding of the world-although dated.  Darwin’s mechanism— natural selection working on variation— might explain many things, however, it can in no way explain molecular life. I also do not think it surprising that the new science of the very small will change the way we view the less small.

When things are going smoothly in our lives most of us tend to think that the society we live in is “natural,” and that our ideas about the world are self-evidently true.  It is hard to imagine how other people in other times and places lived as they did or why they believed the things they did.  During periods of upheaval, however, when apparently ones well established beliefs (your verities) are questioned, it can seem as if nothing in the world makes sense.  During those times, history can remind us that the search for reliable knowledge is a long, difficult process that has not yet reached an end.  In order to develop a perspective from which we can view the idea of Darwinian evolution, I will very briefly outline the history of biology.

A Rube Goldberg contraption is a whimsical term for a device that does something, but whose inner workings are mysterious— sometimes because the workings cannot be seen, and sometimes because they just are not comprehensible.  Computers are a good example of a contraption.  We have no idea of how they work whether we are processing words or plotting graphs or playing games.  We are in contented ignorance of what is going on underneath the outer case.  Even if we were to remove the cover, there is no simple, observable connection between the parts of the computer and the things that it does.

In ancient times all of biology was a contraption, because no one understood on even the broadest level how living things worked. The ancients who gaped at a plant or animal and wondered just how the thing worked were in the presence of unfathomable technology.  They were truly in the dark.

The earliest biological investigations began in the only way they could— with the naked eye.  A number of books from about 400 B.C. (attributed to Hippocrates, the “father of medicine”) describe the symptoms of some common diseases and attribute sickness to diet and other physical causes, rather than to the work of the gods, which was a big improvement for theology.  Although the books were a beginning, these pioneers were still lost when it came to the composition of living things.  They believed that all matter contained four elements: earth, air, fire, and water.  Living bodies were made of four “humors”— blood, yellow bile, black bile, and phlegm— and all disease supposedly arose from an excess of one of the humors.

The greatest biologist of the Greeks was also their greatest philosopher, Aristotle. Born when Hippocrates was still alive, Aristotle realized (unlike almost everyone before him) that knowledge of nature requires systematic observation.  Through careful examination, he recognized an astounding amount of he recognized an astounding amount of within the living world, a crucial first step. Aristotle grouped animals into two general categories— those with blood, and those without— that correspond closely to the modern classifications of vertebrate and invertebrate. Even though his observations were unaided by instruments, much of Aristotle’s reasoning remains sound despite the knowledge gained in the thousands of years since he died.

Galen, a second-century A.D. physician in Rome. Galen’s work shows that careful observation of the outside and (with dissection) the inside of plants and animals, although necessary, is not sufficient to comprehend biology.  Although he knew that the heart pumped blood, he could not tell just from looking that the blood circulated and returned to the heart. Galen mistakenly thought that blood was pumped out to “irrigate” the tissues, and that new blood was made continuously to resupply the heart.  His idea was taught for nearly fifteen hundred years.

It was not until the seventeenth century that an Englishman, William Harvey, introduced the theory that blood flows continuously in one direction, making a complete circuit and returning to the heart. Harvey calculated that if the heart pumps out just two ounces of blood per beat, at 72 beats per minute, in one hour it would have pumped 540 pounds of blood— triple the weight of a man!  Since making that much blood in so short a time is clearly impossible, the blood had to be reused. Harvey’s logical reasoning (aided by the still-new Arabic numerals, which made calculating easy) in support of an unobservable activity was unprecedented; it set the stage for modern biological thought.

In the Middle Ages the pace of scientific investigation quickened. The example set by Aristotle had been followed by increasing numbers of naturalists. Many plants were described by the early botanists Brunfels, Bock, Fuchs, and Valerius Cordus. Scientific illustration developed as Rondelet drew animal life in detail.  The encyclopedists, such as Conrad Gesner, published large volumes summarizing all of biological knowledge.  Linnaeus greatly extended Aristotle’s work of classification, inventing the categories of class, order, genus, and species.  Studies of comparative biology showed many similarities between diverse branches of life, and the idea of common descent began to be discussed even though there was no particular reason for it.

Biology advanced rapidly in the seventeenth and eighteenth centuries as scientists combined Aristotle’s and Harvey’s examples of attentive observation and clever reasoning. Yet even the strictest attention and cleverest reasoning will take you only so far if important parts of a system aren’t visible. Although the human eye can resolve objects as small as one-tenth of a millimeter, a lot of the action in life occurs on a micro level, a Lilliputian scale. So biology reached a plateau: One black box, the gross structure of organisms, was opened only to reveal the black box of the finer levels of life. In order to proceed further biology, needed a series of technological breakthroughs. The first was the microscope.

That was the death knell for all things Darwin.  Neal DeGrasse Tyson, Richard Dawkins, and the rest of their ilk, are out of the running.  Everything you say is moot, there is no proof but that which we can see at the microscopic level. Moreover, that does not randomly develop in 6.5 million species of plants and animals at or near the same time.

Till next time   LEM