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Wednesday, August 13, 2008

Nobel Laureate: Archibald Hill

 

The Nobel Prize in Physiology or Medicine 1922.
"for his discovery relating to the production of heat in the muscle"

Archibald Vivian Hill (1886 - 1977) received the Nobel Prize in Physiology or Medicine for his work on heat production in muscle. He related the heat produced when glycogen was broken down to lactate to the heat generated in frog muscle. Hill was one of the first scientists to relate chemical thermodynamics to biological work.

Hill shared his Nobel Prize with Otto Fritz Meyerhof.

The presentation speech was delivered by Professor J.E. Johansson, Chairman of the Nobel Committee for Physiology or Medicine of the Royal Caroline Institute on December 10, 1923(Note that the 1922 prize was awarded at the same time as the 1923 prize.)

THEME:
Nobel Laureates
Your Majesty, Your Royal Highnesses, Ladies and Gentlemen,

The object of physiology is to endeavour to recognize in the vital processes well-known physical and chemical processes. Accordingly it has to give answers to such questions as these: what is it that takes place in a muscle that contracts, in a gland that emits a secretion, in a nerve when it transmits an impulse? In former times these processes were explained as being the work of what were called «life spirits» - beings who in their mode of existence possessed an unmistakable resemblance to the person who spoke of them. If the muscles of a recently killed animal were seen to twitch when cut or pierced, this was explained by saying that the life spirits had been irritated. From this way of looking at things there still remains the expression «irritation», which we use to denote the starting - or, as we also put it, the liberation - of an active process in an organ. It is a long time, however, since we learnt to regard living organs, muscles, nerves, etc., as mechanisms; and the expression «muscular machine» will probably not strike any educated person in our days as being strange or offensive.

In order to render clear the working of a mechanism it is customary to give a «simplified model» of it. A schematic drawing or an imaginary model may perform the same service, and is at any rate cheaper. The first model that was made of muscular mechanism had the steam-engine as its prototype. Very soon, however, it was perceived that the adoption of an engine of this type presupposes the existence of substances in the muscular fibres capable of sustaining temperatures far exceeding 100°C. The efficiency of muscular work can in fact amount to 20-30%; and such values cannot be obtained by a heat-engine unless the temperature in certain parts of the engine is raised to a considerable height. Hence the muscular machine cannot be referred to that group of motors that transform heat into mechanical work and that are based on the equalization of different temperatures. Theoretically, however, differences in osmotic pressure, surface tension, electrical potential, and so on, offer the same possibility of developing work; and consequently any chemical process whatever that takes place «spontaneously» and that gives rise to such differences in «potential», might be employed in a model of a muscular machine. Thus there is no lack of material for the construction of such a model. The difficulty is to select. In this case there was also a further difficulty, namely that of being able to emancipate oneself, in the design of such a model, from the old and discarded model of a heat-engine. One need not be a physiologist to recognize that muscular activity is essentially bound up with the development of heat, or even with combustion. Now as it is impossible to regard the muscle as a heat-engine, how is it possible to fit these phenomena into the course of action?

This problem has been successfully solved by the two investigators to each of whom the Professorial Staff of the Caroline Institute has this year resolved to award half of the Nobel Prize for 1922 in Physiology or Medicine, namely Professors Archibald Vivian Hill of London and Otto Meyerhof of Kiel. These two men have each worked independently and to a large extent with different methods. Hill has analysed, by means of an extremely elegant thermoelectrical method, the time relations of the heat production of the muscle; and Meyerhof has investigated by chemical methods the oxygen consumption by the muscle and the conversion of carbohydrates and lactic acid in the muscle. Both have made use of the same kind of experimental material, namely the surviving muscle excised from a frog - in fact, the classical frog muscle preparation.

Such a preparation remains alive for several hours, or even days. A suitable stimulus liberates a contraction or develops a state of tension, both of short duration. The twitch takes only one or two tenths of a second. If the stimulus be repeated, the muscle makes a new twitch, apparently resembling the preceding one; and if the muscle is attached to a suitable connecting lever, the several twitches give the same effect as the strokes of a piston in a steam-engine. What was more natural than to regard the muscular twitch as the expression of a circular process in the muscular elements? This process makes itself known in another way also, namely in the form of a development of heat in the muscle preparation. The amount of heat is very insignificant. It is measured in millionths of the usual unit of heat and is recorded in a thermoelectrical way in the form of readings on a galvanometer. Armed with technical resources for observing both the mechanical process and the development of heat in the twitch of an isolated muscle, investigators tried to penetrate more deeply into the muscular process proper. Our countryman Blix showed that everything that impedes the contraction of a muscle during the twitch - that is to say, impedes the diminution of surface of the muscular elements - increases the formation of heat, and from this concluded that the process sought is localized to the surface of certain structural elements which, owing to changed conditions in surface tension, acquire a tendency to pass from an ellipsoidical to a more spherical form. If the load of the muscle gives way to the tension thus created, external work is done. Hence the muscle is mainly to be regarded as a machine that converts chemical energy into tension energy.

In the first experiments that Hill carried out on this subject in 1910 he made use of a thermo-galvanometer designed by Blix. Here he noticed that the reading not only gives the total amount of heat developed, but also is to some extent affected by the period of time taken in the development of heat. He was able to distinguish between an «initial» and a «delayed» development of heat. A subsequent work contained the starting-point for a new method of investigation, which made it possible to trace the development of heat in muscular movements in their various stages. This technique may be described as having been completely developed by 1920; but some of the results that I shall mention had been obtained as early as 1913, that is to say before the outbreak of the World War.

The development of heat in the contraction of the muscle - which to preceding investigators appeared to be «one and indivisible», that is to say, was lumped together as a single phenomenon - can be divided by Hill's method into several periods, the last of which comes long after the end of the mechanical process, that of the twitch. To this must be added the fact that this delayed development of heat entirely fails to appear if the supply of oxygen to the muscle be cut off, while the development of heat during the actual twitch - tension and relaxation - is completely independent of the presence of oxygen. The process of combustion, which it had been customary to connect immediately with the contraction of the muscle, does not actually take place until afterwards. In the experimental arrangements with which we are now dealing (isometrical work) the development of heat during the actual twitch also includes the amount of energy which under other circumstances appears as external work.

Hill's discovery has had a veritably revolutionizing effect as regards the conception of the muscular process. The ordinary view of this process as divided into two phases, tension and relaxation, can, it is true, be retained with regard to the mechanical process, but with regard to the chemical process another division must be adopted - the working phase proper, independent of the supply of oxygen and corresponding to the whole of the mechanical process, and following it an oxidative phase of recovery. If previously in their speculations as to the muscular process physiologists had mainly shown an interest in the actual twitch, investigations now became directed towards the muscle in rest and especially the muscle after preceding exhaustion. Chemical considerations now attracted attention as well as the physical ones.

The earliest known chemical process in the muscle is the formation of lactic acid. This is mentioned as early as 1859 by Du Bois-Reymond. He had found that an excised muscle becomes acid on repeated stimulation even when the rigor mortis sets in. He supposed the cause of this to be the formation of lactic acid - owing, it is stated, to a communication from Berzelius, who had found great quantities of that acid in the flesh of a deer that had been killed in the chase. Since that time lactic acid has played a very important part in discussions as to rigor mortis and the fatigue of the muscle. Some years before Hill began his investigations, two of his countrymen, Fletcher and Hopkins, had shown that the excised muscle not only forms but also converts lactic acid, this depending on whether the muscle is shut off from oxygen or whether oxygen is supplied to it. Some observations also suggested that when the lactic acid disappears from the muscle, only part of it is burnt up, while the rest is re-transformed into the mother substance of lactic acid. In consequence of this there was reason to surmise that the part played by lactic acid in the muscles is not completely represented by such expressions as «by-product of the metabolism», «fatigue substance», «cause of rigor mortis», etc. In this connection Hill proposed that lactic acid should be included as a part of the actual muscle machine.

The formation of lactic acid in the muscle, according to Fletcher and Hopkins, and this development of heat in the muscle during its working phase, according to Hill, exhibit the striking accordance that they take place independent of the oxygen supply. According to Blix, the twitch came about due to the fact that along the surface of certain structural elements there suddenly appears some substance, the nature of which is not stated. If we suppose this substance to be lactic acid - formed either directly or with some intermediate stage from the muscles' well-known store of glycogen - we have a model which combines in itself the most valuable contributions of the investigations of the last few decades on this question. We make the stage of recovery, accompanied by the supply of oxygen, follow the working phase together with Hill's delayed development of heat and Fletcher's conversion of lactic acid. The fact is that lactic acid, when it has done its work, must be got rid of somehow in order that the machine may be kept going.

By a well-known calculation Hill tried to find support for the recently quoted supposition of Fletcher and Hopkins with regar d to a reversion, in conjunction with the lactic acid combustion, of lactic acid to glycogen during the phase of recovery. It is easy to see that the correctness of this supposition forms a condition that the model cited should be acceptable from the point of view of energetics. But objections were made against the analyses and arguments of Fletcher and Hopkins. Moreover, there were adduced, from what were considered to be extremely competent quarters, direct observations which seemed to show that the lactic acid formed in the working phase was completely used in the process of recovery - a piece of wastefulness on the part of Nature which could only be explained by means of auxiliary hypotheses in the presence of which it would have been the simplest thing to let the whole of the attractive model take part in the combustion.

It is at this stage in the development of the question that Meyerhof's contribution comes in. In his investigations concerning the respiration of the tissues (1918) he came to devote his attention to the things that take place in the surviving muscle, and in this connection also to the objections that had been raised against the conclusions of Fletcher and Hopkins and their interpretation of the «lactic acid maximum» of the muscle. He showed that these objections do not really affect the result of the recently cited calculations of Hill. Most important of all, however, was his parallel determination of the lactic acid metabolism and the oxygen consumption during the recovery of the muscle, which yielded the result that the oxygen consumption does not correspond to more than 1/3 - 1/4 of the simultaneous lactic acid metabolism. Evidently the greater part of the lactic acid disappears in some other way than through combustion. In another parallel determination - the development of heat and the oxygen consumption - the development of heat exhibited a deficit in comparison with what could be calculated from the simultaneously observed oxygen consumption. From this the conclusion may be drawn that the combustion of lactic acid in the muscle is combined with some other process, an endothermic one, in the course of which part of the heat developed in the combustion is used up. Meyerhof also made a parallel determination of the carbohydrates and lactic acid in the resting and in the working muscle, also in the recovery period after fatigue; he found: when lactic acid is stored in the muscle, an equivalent quantity of carbohydrates, chiefly glycogen, disappears, while when lactic acid disappears, the quantity of carbohydrates in the muscle is increased by an amount equivalent to the difference between the total amount of lactic acid that has disappeared and the quantity oxidized corresponding to the oxygen consumption.

Hence the processes which we have to take into account in the muscles are: (1) the formation of lactic acid from carbohydrates; (2) the combustion of lactic acid to carbonic acid and water; and (3) the reversion of lactic acid to carbohydrates. But these processes are not confined to the uninjured muscle. Meyerhof has also traced them in finely chopped muscle substance kept moist in a suitable liquid, and in that case found them take place 10-29 times more rapidly than in the well-known muscle preparation. In such a dilution it is also possible to study the effect of different factors such as the concentration of hydrogen ions, the presence of phosphates, etc.; and in particular it has been possible to make clear to what extent the various processes are connected with one another or can be varied in relation to one another. A matter of extremely great interest is the establishment of the fact that the combustion of lactic acid in the muscle cannot take place without a simultaneous formation of lactic acid from carbohydrates, and that the combustion of lactic acid is connected with the formation of carbohydrates in such a way that out of four molecules of lactic acid one is oxidized, while the three others are reverted to carbohydrates. lt is not inconceivable that the reversion does not always extend so far as to produce carbohydrates; but the ideal course of the process may be regarded as precisely defined by Meyerhof, and it has been represented by him in the form of a scheme of chemical reaction. In this scheme, too, can well be fitted the lactacidogen discovered by Embden as a connecting link between glycogen and lactic acid.

The chemical processes just cited have to be fitted into the model of the muscle machine. Ignoring other considerations than those of energy, we can express the course of action in the following way: the change in the muscle which forms the basis of the mechanical process (the external work) presupposes a certain quantity of lactic acid, which comes from the muscle's store of glycogen. When this lactic acid has done its work, 1/4 is burnt into carbonic acid and water, while 3/4 return to the store of glycogen. The upper limit of the efficiency of the machine, calculated according to this scheme, will be 50%, which fully corresponds to the real state of things.

The combustion of lactic acid demands oxygen. The muscle preparation, however, can work even if the supply of oxygen is cut off. The lactic acid formed at every twitch spreads in the muscle out from the places where it is formed until the muscle substance finally becomes so impregnated with lactic acid that it is not relaxed between the twitches, and the impulses applied do not give rise to any further formation of lactic acid. The muscle is exhausted or, as one might also put it, poisoned with lactic acid. In the body the muscle is transfused with blood, which supplies oxygen in far greater abundance than that which the excised muscle preparation can obtain from its environment. Owing to its store of alkali, moreover, the blood itself provides room for a certain quantity of lactic acid from working muscles - a quantity of lactic acid that the blood can afterwards get rid of during a subsequent interval in the work. The possibility of thus distributing the combustion of lactic acid during a period that is longer than the work itself, provides us with an explanation of the immense amount of work achieved, especially in the sporting competitions of our day. Even with a volume per minute corresponding to the extreme working capacity of the heart there is not obtained in these cases a supply of oxygen corresponding to the formation of lactic acid in the muscles; and consequently the individual exposes himself to an accumulation of lactic acid in the blood and in all the tissues or the body - an accumulation that must be characterized as poisoning. When we are dealing with competitions for children and young people who are not yet grown up, there is good reason to think about this detail with regard to the muscle machine.

Professors Hill and Meyerhof. Your brilliant discoveries concerning the vital phenomena of muscles supplement each other in a most happy manner. It has given a special satisfaction to be able to reward these two series of discoveries at the same time, since it gives a clear expression of one of the ideas upon which the will of Alfred Nobel was founded, that is, the conception that the greatest cultural advances are independent of the splitting-up of mankind into contending nations. I also feel confident that you will be glad to know that the proposition which has led to this award of the Nobel Prize originated from a German scientist who, in spite of all difficulties and disasters, has clearly recognized the main object of Alfred Nobel.

In conferring upon both of you the sincere congratulations of the Caroline Institute, I have the honour of asking you to receive from His Majesty the King the Nobel Prize for 1922 in Physiology or Medicine.


Monday, August 11, 2008

Science and the Question of Purpose

 
Lawrence Krauss has a column in the Aug. 2 issue of New Scientist [Why God and Science Don't Mix].1 The article is mostly about why scientists should not support the Templeton Foundation but I want to focus on one particular statement.

Krauss says,
Science must follow nature wherever it leads us. If it turn out to suggest that we are alone in a universe without purpose, we must accept that.
Let's not quibble about the "alone" part. I think that science does, indeed, reveal a universe without purpose. In particular, it strongly indicates that humans have no special place in the universe and no special role to fulfill. This is one of the reasons why science and religion are in conflict.

Theistic evolutionists and soft intelligent design creationists claim that the universe was set up by God in a way that makes intelligent life inevitable. Many of them claim that the goal is to evolve humans—or something like humans—whose purpose is to discover God and worship Him.

Here's the question. Does science really tell us that there's no purpose and humans aren't special? I think it does suggest exactly that and anyone who chooses to think otherwise is in concflict with science. It's one of the reasons why I think that science and religion are in conflict.

Now, I admit that the inference of purposelessness isn't obvious to the average person but I think it's plain to those people who study science for a living. Perhaps it explains why so many scientists are nonbelievers and perhaps it's why religious scientists such as Ken Miller, Francois Collins, and Simon Conway Morris have to develop such convoluted arguments to rationalize the conflict [Does the Univese Have a Purpose?].


1. It's interesting that the print version of this essay is titled "Let's Listen to What Nature Says." A much better title IMHO.

Horse Thieves, Skeletons and Black Sheep in the Family

My mother does genealogy. She has dozens of binders full of notes about our ancestors—some date back to 450 AD but most lineages can't be traced back much before 1500. It's fun to find out about your ancestors and about the history that they lived.

Sometimes there are surprises. Some of our ancestors were United Empire Loyalists who left New Jersey for Prince Edward Island after the American Revolution. We are descended from Isabella Robins, daughter of Richard Robins of Monmouth Co. in New Jersey (b. 1746). Richard's father was Benjamin Robins (b. 1686) and Benjamin's father (Richard's grandfather) was Daniel Robins who was born in Scotland in 1627 and sent to Connecticut in 1652 as an indentured servant after being captured by Cromwell's army following the battles of Dunbar and Wocester. (Our relatives were frequently on the losing side!)

After serving his eight years as an indentured servant, Daniel Robins married Hope Potter in New Haven Conn. in 1641. Now here's the interesting part. Hope Potter's father was William Potter (b. 1608) who first came to New England in 1635. When searching for information about William Potter, my mother came across this opening paragraph on a listserve.
Every amateur genealogist has in the back of his or her mind that someday an ancestral skeleton will appear, perhaps the legendary "horse thief". For those who are descendants of William Potter, the skeleton has appeared, but he did not steal the horses.
Hmmm ....

Turns out that William Potter, my great- great- great- great- great- great- great- great- grandfather, is pretty well known to genealogists. He had lots of descendants but that's not the only reason he's so famous. He was an animal lover.

William Potter was hung in 1662 for bestiality. By his own admission he had a fondness for horses, dogs, cows, sheep and pigs. His wife and children, having caught him in the act, laid charges before the Court of Magistrates in Newhaven (New Haven) [William Potter's Crime].
The Court haveing considered the case p'ceeded to sentence, & first read the law to him, & then the Governor asked him if he had anything to say why the court should not p'ceede to judge him according to the law.

He answered noe, but his great matter was betweene God & his soule, to desire him to give him repentance.

The Governor then declared, that seeing it is soe, they could doe noe otherwise, and he therefore in the name of the court did declare to William Potter that the law read was the sentence of the court, to be executed upon him, viz: that he be hanged on the gallowes till he be dead, & then cut downe & buried, & the creatures with whome he hath thus sinfully acted to be put to death before his eyes.
Twelve generations ago, I have about 4000 direct ancestors. William Potter was only one of them. All the others, I'm sure, were fine god-fearing, outstanding, citizens and a credit to their communities. Especially the ones that weren't Americans.


Monday's Molecule #83

 

In honor of the Olympics, today's molecule is one that every athlete is afraid of. None of them want to allow this molecule to accumulate in their tissues during the competition.

Your task if to identify the molecule and its precursor and the enzyme responsible for the reaction. Be as specific as possible, especially when identifying the dangerous molecule on the right.

There's a indirect connection between today's molecule and a Nobel Prize. The Noble Laureate was among the first to identify the relationship between production of the molecule and the activity associated with the athletes. He won the prize for explaining, in part, why athletes get hot.

The first person to correctly identify the reaction and name the Nobel Laureate(s), wins a free lunch at the Faculty Club. Previous winners are ineligible for one month from the time they first collected the prize. There are only two ineligible candidates for this week's reward. You know who you are.

THEME:

Nobel Laureates
Send your guess to Sandwalk (sandwalk (at) bioinfo.med.utoronto.ca) and I'll pick the first email message that correctly identifies the molecule and names the Nobel Laureate(s). Note that I'm not going to repeat Nobel Laureate(s) so you might want to check the list of previous Sandwalk postings by clicking on the link in the theme box.

Correct responses will be posted tomorrow. I reserve the right to pick multiple winners if several people get it right.

Comments will be blocked for 24 hours.


Saturday, August 09, 2008

Nisbet Attacks PZ Myers (again)

 
Mathew Nisbet has unleashed another attack on vocal atheists in general and PZ Myers1 in particular [Two Images of Atheism: Hate versus Community].
Atheists have a major image problem. There's a reason that when people ask me what I believe I have to say with a smile: "I'm an atheist...but a friendly atheist." For sure, atheists for a long time have been unfairly stereotyped in the mainstream media and in popular culture. But we also have a lot of lousy self-proclaimed spokespeople who do damage to our public image. They're usually angry, grumpy, uncharismatic male loners with a passion for attacking and ridiculing religious believers. Any fellow atheist who disagrees with their Don Imus rhetoric, they label as appeasers.

These "new atheists" are the dark under belly of atheism. In books, blogs, and public statements, they sell us ideological porn, sophomoric rants that feed our dark sides and reinforce our own unfair stereotypes about the "other," i.e. the religious.

Yet all of this does far more harm than good. The addictive nature of their rhetoric radicalizes us and leads us to an ever more closed off conversation about how we are superior and everyone else is delusional.
Nisbet thinks he's an expert on how to deal with the problems of religion. He just doesn't get it. Several decades of being "nice" and "friendly" toward those who believe in superstitious nonsense got us nowhere. We atheists were ignored at best, and denigrated at worst.

Now, just a few years after publication of The God Delusion (and other books), atheism is on the radar and the believers have to deal with the fact that non-believers exist. Not only that, the non-believers are fighting back against the religious bigots. People like PZ Myers have done more to advance the case for rationalism over superstition than all the Nisbets have done in decades of accommodation. That makes Matt really, really mad. He just can't cope with the fact that his version of framing didn't work.

The guest blogger on Pharyngula took note of the attack (PZ is in the Galapagos) [Oh, the Drama]. Needless to say, the comments on that blog are not kind to Nisbet, but, then again, neither are the comments on his own blog. Not too many people like Matt Nisbet these days. I can't imagine why. Could it have something to do with bad framing?

Afarensis recognizes the injustice of Nisbet's attack: Framing Science Embraces the Willie Horton Strategy


1. The picture that Nisbet posted of PZ Myers is beyond the pale. Whatever remaining credibility Nisbet had (not much) is gone.

What Is the "t-complex" and Why Should You Know About It?

 
I used to know all about it and even taught the underlying concept to undergraduates. That was 25 years ago and I'd forgotten what the t-complex was all about. Anonymous Coward1 wanted to find out and (s)he posted a description on bayblab [WTF is transmission ratio distortion]. Normally I don't like linking to anonymous blogs but I'll make an exception here because this is cool.


1. What a good pseudonym!

40 Years Ago Today

 
Today is our 40th wedding anniversary.





Friday, August 08, 2008

The Genius of Charles Darwin

 
This is a really excellent TV series narrated by Richard Dawkins. I'm very impressed with Dawkins as a TV personality and I agree completely with his view of Darwin as an extraordinary genius. The one thing that bothers me is the adaptationist bias of Dawkins—the same thing I've been complaining about in several other postings.

At the beginning of Part 1, Dawkins says ...
This series is about perhaps the most powerful idea ever to occur to a human mind. The idea is evolution by natural selection and the genius who thought of it was Charles Darwin.... What Darwin achieved was nothing less than the complete explanation of the complexity and diversity of all life. And yet it's one of the simplest ideas that anyone ever had.
This is not correct. The complete explanation requires knowledge of genes, genetics, population genetics, random genetic drift, speciation, horizontal gene transfer, biochemistry, physiology, embryology, developmental biology, molecular drive, mutation, recombination, punctuated equilibria, species selection (possibly), cladistics, mass extinctions, plate tectonics, and much more. Even with all that there are still some things we're unsure about, like how to explain the Cambrian explosion

Part 1


Part 2


Part 3


Part 4


Part 5



How Do Ligands Bind to Proteins?

When glutamine is bound to glutamine-binding protein, the protein is wrapped around the ligand to form a closed binding site that brings more amino acid side chains into contact with the ligand. The unbound protein has a much more open confromation.

The traditional explanations of binding is that the ligand binds to to open form of the protein and causes it to undergo a conformational change creating a closed pocket. The mechanism is called "induced fit." Now, there is evidence that the protein may transiently adopt the closed conformation in the absence of ligand and the ligand binds directly to the closed conformation.

Discount Thoughts reviews a recent paper [Do conformational changes precede or follow binding?]


[Figure credit: Okazaki, K., Takada, S. (2008) Dynamic energy landscape view of coupled binding and protein conformational change: Induced-fit versus population-shift mechanisms. Proc. Nat. Acad. Sci. (USA) 105:11182-11187. [DOI: 10.1073/pnas.0802524105]

The End Is Nigh

 

The Large Hadron Collider is due to be activated on September 10th. Estimates on how long it will take to create a black hole vary from microseconds to about 24 hours. Let's be optimistic and assume that it will take until Thursday morning (September 11th).

I figure the airport (Cointrin) will be sucked in before noon and Geneva should be swallowed up by at least 2pm. France will be gone by 4pm and we in Toronto will encounter the event horizon at midnight.

The good news is that I won't have to buy Ms. Sandwalk a birthday present on Friday. The bad news is that we may be spending an infinite amount of time together as we cross the event horizon so I might wish I had.


nigh: Common Teutonic: OE. néah, néh = OFris. nei, nî, MDutch na, nae (Dutch na), OS. nâh (MLG. nâge, nâ), OHG. nâh adv., nâher adj. (MHG. nâ, nâh-, nâch, G. nah), ONor. ná- (in combs. like ná-búi neighbour; Sw. and Da. na-), Goth. nêhwa (nêhw): the stem appears to be unrepresented outside Teutonic. OHG. is the only one of the older languages in which a fully developed adjectival use of the word exists along with the adverbial. In OE. there are very scanty traces of adjectival inflexion, néah being commonly employed either as a simple adv. or with a dependent dative: in predicative use it may sometimes be taken as an adjective, but it is more probable that in such cases also it is an adverb. It is not till the 14th or 15th cent. that the attributive use becomes common.

The original comparative of néah as an adv. is néar, néor, near adv.1, while the adj. form néarra finally became ner, nar a. The OE. superlative níe(hook)hst(a is latterly represented by next a. and adv. After phonetic changes had obscured the relationship of these forms to the positive, a new compar. and superl., nigher and nighest, were formed, and have been in common use since the 16th cent.

= near adv.2 and a. (which in all senses has taken the place of nigh except in archaic or dialect use). [Oxford English Dictionary]

The Hype About Darwin Continues

 
Let me be clear about one thing. I've said it many times but it bears repeating. In my opinion Charles Darwin is the greatest scientist who ever lived and natural selection is one of the greatest ideas in science.

That should never be an excuse for exaggerating Darwin's contribution to modern evolutionary theory yet that's what we're seeing in the run-up to the 150th anniversary of the publication of On the Origin of Species. I was tremendously disappointed in the Royal Ontario Museum symposium a few weeks ago [Darwinism at the ROM] and in several articles that have been published since then.

I'm going to keep harping on this point until it sinks in. Here's the latest example from TimesOnline in the UK [Darwin's Bulldogs].
Next year marks the 200th anniversary of the birth of Charles Darwin and the 150th anniversary of the publication of his On The Origin of Species. The Natural History Museum and the BBC plan extensive education programmes. Anticipating the anniversaries, Professor Richard Dawkins is presenting a series on Channel 4. These are welcome ventures. On the evidence of its first episode, Professor Dawkins's exposition of Darwinism will be an important public resource.

Darwin founded a branch of learning that has remarkable explanatory power and also grandeur. That the mechanism of evolution is natural selection is one of the great discoveries of science, with implications far beyond evolutionary biology. As Ernst Mayr, the biologist, wrote: “No educated person any longer questions the validity of the so-called theory of evolution, which we now know to be a simple fact.”

It is an unfortunate wonder of the modern age that people who are highly educated in some areas may still be resistant to scientific inquiry. We customarily think of objectors to Darwinism as Protestant fundamentalists. There is in fact a worrying trend for Muslim children to be taught the myths of creation, and the pseudoscience of “intelligent design”, as an explanation of the origins of life.
There are three things wrong with this short article.

First, the statement, "That the mechanism of evolution is natural selection is one of the great discoveries of science ..." is just plain wrong. Natural selection is one of the mechanisms of evolution but it is not the only one. Why can't people grasp this simple concept? It does not denigrate Charles Darwin's contribution to point out that we discovered other mechanisms in the 20th century.

Second, Mayr's statement, taken out of context, is misleading. Evolution is a fact but evolutionary theory is not a fact [Evolution Is a Fact and a Theory].

Third, I object to the term "Darwinism" and I am not a Protestant fundamentalist, a Muslim, or an IDiot. I wish journalists would make the effort to realize that modern evolutionary theory is no longer called "Darwinism." [Why I'm Not a Darwinist]. This does not mean that Charles Darwin was wrong. It simply means that the science of evolutionary biology has advanced a smidgen since 1859.


[Hat Tip: RichardDawkins.net]

Amazing Catch by Ball Girl

 
Friday's Urban Legend: FALSE

This video is making the rounds. It shows a ball girl making an amazing catch of a fly ball then casually tossing it to the left fielder. Too bad it's a fake [Ballgirl].




Thursday, August 07, 2008

Are You Disappointed in Barack Obama?

 
I've always been a bit skeptical of Obama. It seemed to me that he wasn't as sincere about his "progressive" stance as, say, Dennis Kucinich. I wondered whether he wasn't playing to a particular audience in order to win the nomination.

Apparently I'm not the only one. There are a group of Americans who have become very nervous about Obama's move to the center. They've written an open letter to Barack Obama that's been published in The Nation [Change We Can Believe In].

The authors of the letter make the important point that the progressives who were attracted to the Obama campaign are the very ones who will ensure a victory in November. They are worried that these progressives will not make the effort to work for Obama if he continues to abandon the core principles that attracted them to the primary campaign.

We urge you, then, to listen to the voices of the people who can lift you to the presidency and beyond.

Since your historic victory in the primary, there have been troubling signs that you are moving away from the core commitments shared by many who have supported your campaign, toward a more cautious and centrist stance--including, most notably, your vote for the FISA legislation granting telecom companies immunity from prosecution for illegal wiretapping, which angered and dismayed so many of your supporters.

We recognize that compromise is necessary in any democracy. We understand that the pressures brought to bear on those seeking the highest office are intense. But retreating from the stands that have been the signature of your campaign will weaken the movement whose vigorous backing you need in order to win and then deliver the change you have promised.
I think they have a point but the more interesting question, from my perspective, is which one is the real Obama? Does he really believe in universal health care but is willing to make compromises for the sake of political expediency, or is he lukewarm on socialized medicine? Does he really believe that the USA needs to get out of Iraq because it never should have been there in the first place, or is he willing to compromise on that stance? What does he really think about the death penalty? Is he opposed on principle, in which case there's no compromise, or are his "principles" negotiable? Does he really expect to change the way things are done in Washington, or is that just something he says in order to get votes?

There's a discussion going on about this on Pharyngula [Progressives put pressure on Obama] but most readers are avoiding the real question. One commenter (Amplexus) said,
My fellow godless hedonists,

Obama is totally on our side. He's just hiding some of his feelings to get elected. We cannot take a stand on principle, we cannot afford to. Obama is blurring his position to win over independents that he sure as hell is going to shake off when he gets elected.
In other words, Obama is a liar and a hypocrite but that's okay because we all know that deep down he's a true believer.

Is that the common point of view among liberal Americans? Won't John McCain exploit this hypocrisy during the campaign?


Evolutionary Psychology: The Capacity for Religion

 
Allen MacNeill has started a new blog called Evolutionary Psychology. Allen teaches introductory biology and evolution at Cornell University (New York, USA). This could be a good addition to the blogosphere since he intends to defend the field. (Good luck!)

The first posting on the new blog is The Capacity for Religious Experience is an Evolutionary Adaptation for Warfare. It starts out well with ...
Recent work on the evolutionary dynamics of religion have converged on a "standard model" in which religions and the supernatural entities which populate them are treated as epiphenomena of human cognitive processes dealing with the detection of and reaction to agents under conditions of stress, anxiety, and perceived threat.
I agree with this. There has been selection in the primate lineages for intelligence and one of the reasons for the fitness advantage may well be the ability to cope with external threats. I think that religion, and many other human behaviors, are epiphenomena that are indirect consequences of intelligent brains.

Unfortunately, this does not seem to be what MacNeill really means. He goes on to describe behaviors such as religion and warfare as though they were individually selected. He seems to be implying that there are genes for religious behavior and for engaging in warfare. This isn't the same as the "standard" model—unless my interpretation is completely wrong.

Here's how religion evolved, according to MacNeill ...
Wilson (2002) has proposed that the capacity for religion has evolved among humans as the result of selection at the level of groups, rather than individuals. Specifically, he argues that benefits that accrue to groups as the result of individual sacrifices can result in increased group fitness, and this can explain what is otherwise difficult to explain: religiously motivated behaviors (such as celibacy and self-sacrifice) that apparently lower individual fitness as they benefit the group.

At first glance, Wilson's argument seems compelling. Consider the most horrific manifestation of religious warfare: the suicide bomber. A person who blows him or herself up in order to kill his or her opponents has lowered his or her individual fitness. Doesn't this mean that such behavior must be explainable only at the level of group selection? Not at all: the solution to this conundrum is implicit in the basic principles of population genetics. Recall that one of Darwin's requirements for evolution by natural selection was the existence of variation between the individuals in a population. (Darwin, 1859, pp. 7 - 59) Variation within populations is a universal characteristic of life, an inevitable outcome of the imperfect mechanism of genetic replication. Therefore, it follows that if the capacity for religious experience is an evolutionary adaptation, then there will be variation between individuals in the degree to which they express such a capacity.

Furthermore, it is not necessarily true that when an individual sacrifices his or her life in the context of a struggle, the underlying genotype that induced that sacrifice will be eliminated by that act. Hamilton's principle of kin selection (Hamilton, 1964) has already been mentioned as one mechanism, acting at the level of individuals (or, more precisely, at the level of genotypes), by which individual self-sacrifice can result in the increase in frequency of the genotype that facilitated such sacrifice. Trivers (1971) has proposed a mechanism by which apparently altruistic acts on the part of genetically unrelated individuals may evolve by means of reciprocal altruism.

Given these two mechanisms, all that is necessary for the capacity for religious behavior, including extreme forms of self-sacrifice, to evolve is that as the result of such behaviors, the tendency (and ability) to perform them would be propagated throughout a population. The removal of some individuals as the result of suicide would merely lower the frequency of such tendencies and abilities in the population, not eliminate them altogether. If by making the ultimate sacrifice, an individual who shares his or her genotype with those who benefit by that sacrifice will, at the level of his or her genes, become more common over time. (Wilson, 1975, p. 4)
I take issue with this description. When an evolutionary psychologist says that "all that is necessary" for the evolution of a behavior is that it confers some advantage, your adaptationist bullshit detector should hit the red line. That's not all that is necessary. Another, very important, requirement is that there be a genetic component to the behavior. In other words, we need to show that suicide bombers (for example) have different alleles in their genomes than atheists.

I don't believe there's any evidence that such alleles exist.

The idea that there's a specific genetic propensity for religion is difficult to reconcile with our history. If religion alleles have been selected for thousand of years then how come European countries have been becoming secular in the past century? Are Europeans just learning to override the dictates of thei genes?

Or, is religion just an epiphenomenon—one of many cultural ways that a society can encourage cohesiveness? As a way of creating unity—and identifying strangers—religion is no different than patriotism or irrational devotion to a charismatic political leader (Obama as a religion? ). As a matter of fact, it's probably no different than the cliques formed by adolescent girls or the street gangs of teenage boys. They all serve the same purpose, albeit on different scales. They are all learned behaviors. In my opinion, religion is a product of nurture, not nature.



Has Darwinism Been Rejected?

 
A number of misconceptions about evolution are described on the website Understanding Evolution for Teachers. One of them is Misconception: “Most biologists have rejected ‘Darwinism’ (i.e., no longer really agree with the ideas put forth by Darwin and Wallace).
Response: Darwin’s idea that evolution generally proceeds at a slow, deliberate pace has been modified to include the idea that evolution can proceed at a relatively rapid pace under some circumstances. In this sense, “Darwinism” is continually being modified. Modification of theories to make them more representative of how things work is the role of scientists and of science itself.

Thus far, however, there have been no credible challenges to the basic Darwinian principles that evolution proceeds primarily by the mechanism of natural selection acting upon variation in populations and that different species share common ancestors. Scientists have not rejected Darwin’s natural selection, but have improved and expanded it as more information has become available. For example, we now know (although Darwin did not) that genetic mutations are the source of variation acted on by natural selection, but we haven’t rejected Darwin’s idea of natural selection—we’ve just added to it.

Here's how I would re-word the first sentence of the second paragraph.
We now know that natural selection is just one of several mechanisms of evolution. One of the others is random genetic drift where variants can become established in a species purely by chance. There is clear evidence that variants that are neither harmful or beneficial can contribute to evolution and, in fact, the evidence suggests strongly that this is the most common form of evolution. However, there have been no credible challenges to the basic Darwinian principles that adaptive evolution proceeds exclusively by the mechanism of natural selection acting upon variation in populations and that different species share common ancestors.
I realize that my version is more complicated but it is also more accurate. This is a case where over-simplification comes at the expense of accuracy and I don't think the spin framing version is worth the sacrifice. There's nothing wrong with informing the general public (and teachers) that Darwinism remains true even though modern evolutionary theory covers much more than just Darwin's central ideas.

Ironically, the Understanding Evolution website has a good description of Genetic Drift, which they describe as "one of the basic mechanisms of evolution." I don't know why don't mention these other mechanisms on the page where they discuss Darwinism.

Now, look at the first paragraph of the website version. I think they're referring to punctuated equilibria. In this case, the extra complication isn't worthwhile because it doesn't really represent a significant change from Darwin's idea of evolution by natural selection. As a matter of fact, the description is downright misleading. The key concept in punctuated equilibria is that evolutionary change is associated with speciation by cladogenesis and the idea that evolution can occur rapidly isn't all that significant.


Missing Pieces of the Puzzle

 
Understanding Evolution for Teachers is a website run by the University of California Museum of Paleontology (UCMP) in Berkeley.

Part of the website addresses a number of misconceptions about evolution and one of them is: Misconception: “Evolutionary theory is incomplete and is currently unable to give a total explanation of life”.

What I particularly like about their explanation is the "jigsaw puzzle analogy" that they use to illustrate the concept. Looking at the figure, you can immediately see the relevance—the fact that a few pieces are missing does not mean that we can't see the big picture.

There is no doubt about the general structure of evolutionary theory in spite of the fact that some pieces of the puzzle haven't been put in their proper place. There is no doubt about the fact that neither creationism nor any other explanation fits the scientific data.

I don't know who first came up with the jigsaw puzzle analogy. I first heard about it on talkorigins many years ago but I've forgotten who the author was. Please let me know if you remember. This figure needs to be widely disseminated because it makes an important point. I hope the University of California and the Understanding Evolution website won't object as long as we attribute it to them.


[Hat Tip: John Dennehy]

Wednesday, August 06, 2008

Tangled Bank #111

 
The latest issue of Tangled Bank has been published on denialism blog [Tangled Bank #111].
Welcome to Tangled Bank #111! Today's entries are presented without comment, but with poetry, a truly remarkable natural, albeit human, phenomenon, or to quote Love and Rockets:

You can't go against nature
Because when you do
Go against nature
It's part of nature too.


If you want to submit an article to Tangled Bank send an email message to host@tangledbank.net. Be sure to include the words "Tangled Bank" in the subject line. Remember that this carnival only accepts one submission per week from each blogger. For some of you that's going to be a serious problem. You have to pick your best article on biology.

On this day in 1945 ...

 
(reposted from August 6, 2007)

At 8:15 AM on August 6, 1945 an atomic bomb was detonated over Hiroshima, Japan. Approximately 78,000 civilians were killed on that day. Six months later the death toll had risen to about 140,000 people.

There are many arguments in favor of dropping the bomb just as there are many arguments against it. What's clear is that in the context of 2007 we are not in a good position to judge the actions of countries that had been at war for many years.

The most important lesson of Hiroshima is that war is hell and many innocent people die. It's all very well to enter into a war with the best of intentions—as the Japanese did on December 7, 1941—but it's foolish to pretend that when you start a war there won't be any suffering. When you do that you can really say that the victims of Hiroshima died in vain.

The killing and maiming of civilians is an inevitable outcome of war, no matter how hard you might try to restrict your targets to military objectives. Before going to war you need to take the consequences into account and decide whether the cost is worth it.

One of the many mistakes in Iraq was the naive assumption that it would be a clean war with few casualties and no long-term consequences for the Iraqi people. Yet today, the numbers of innocent lives lost in Iraq is comparable to the numbers lost in Hiroshima and Nagasaki. And what is the benefit for Iraq that outweighs the cost in human lives? Is it "freedom" and "democracy"?

Hiroshima was not a glorious victory. It was ugly, heartbreaking, and avoidable. War is not an end in itself, it is the failure of peace. War is not an instrument of your foreign policy—it is an admission that you don't have a foreign policy.

[The top photograph shows the mushroom cloud over Hiroshima on the morning of August 6, 1945 (Photo from Encyclopedia Britanica: Hiroshima: mushroom cloud over Hiroshima, 1945. [Photograph]. Retrieved August 7, 2007, from Encyclopædia Britannica Online. The bottom image is taken from a Japanese postcard (Horoshima and Nagassaki 1945). It shows victims of the attack on Hiroshima.]


Nobel Laureates: Karl von Frisch, Konrad Lorenz, Nikolaas Tinbergen

 

The Nobel Prize in Physiology or Medicine 1973.
"for their discoveries concerning organization and elicitation of individual and social behaviour patterns"

Karl von Frisch (1886 - 1982), Konrad Lorenz (1903 - 1989), and Nikolaas Tinbergen (1907 - 1988) received the Nobel Prize in Physiology or Medicine for their work on animal behavior. This is the most biological of all Nobel Prizes that have been awarded and, at the time, it suggested that the Nobel Committee was prepared to consider a wider view of "physiology." That turned out to be optimistic. Subsequent prizes have failed to recognize advancements in evolution and ecology, to name just two disciplines that have been ignored.

The presentation speech was delivered in Swedish by Professor Börje Cronholm of the Karolinska Medico-Chirurgical Institute.

THEME:
Nobel Laureates
Your Majesty, Your Royal Highnesses, Ladies and Gentlemen,

Animal behavior has fascinated man since time immemorial as can be witnessed by the important role of animals in myths, fairy-tales and fables. However, for too long man has tried to understand it from his own experiences, from his own way of thinking, feeling and acting. Descriptions along these lines may be quite poetic, but they do not lead to any increase in knowledge. Various pre-scientific ideas have been especially tenacious in this field. Thus, it is not long ago that the vitalists maintained that the instincts bore witness of a wisdom that was inherent in the organism and could not be further analyzed. It was not until behavior problems were studied by means of scientific methods, by systematic observation and by experimentation, that real progress was made. Within that research field this year's Nobel prize laureates have been pioneers. They have collected numerous data about animal behavior both in natural settings and in experimental situations. Being biological scholars they leave also studied the functions of behavior patterns, their role in the individual struggle for life and for the continuation of the species. Thus, behavior patterns have stood out as results of natural selection just as morphological characteristics and physiological functions.

It is of fundamental importance that some behavior patterns evidently are genetically programmed. The so-called fixed action patterns do not request any previous experience and they will be automatically elicited by definite key stimuli. They proceed in a mechanical, robot-like way, and when they have started they are no more influenced by external circumstances. In insects, fishes and birds, such important procedures as courtship, nesting and taking care of the brood, to a large extent consist in fixed action patterns. With development of the brain hemispheres, behavior has become increasingly modifiable and dependent on learning in mammals and especially in man, but fixed action patterns still play an important role.

For more than sixty years: Karl von Frisch has devoted himself to studies of the very complicated behavior of honeybees. Above all, he has elucidated what has rightly been called 'the language of bees'. When a bee has found flowers containing nectar, it performs a special dance when returning to the hive. The dance informs the bees in the hive of the existence of food, often also about the direction where the flowers will be found and about the distance to them. The foraging bee is able to indicate the direction of the food source in relation to the sun by means of analyzing polarized, ultraviolet light from the sky, light that is invisible to us. The honeybees do not learn, either to dance or to understand the message of the dance. Both the dancing and the appropriate reactions to it are genetically programmed behavior patterns.

Konrad Lorenz has studied among many other things the fixed action patterns of various birds. His experiments with inexperienced animals, e.g. young birds from an incubator, are of great importance in this context. In these young birds he observed behavior patterns that could not reasonably have been learnt but were to be interpreted as being genetically programmed. He also found that experiences of young animals during a critical period could be decisive for their future development. Newborn ducks and geese follow the first moving object that they catch sight of, and later on they will follow those particular objects only. Normally, they will follow their mother, but they may be seduced to follow almost any moving object or creature. This phenomenon has been called 'imprinting'.

While Konrad Lorenz has above all been a systematic observer of animal behavior, Nikolaas Tinbergen has to a large extent tested various hypotheses by means of comprehensive, careful, and quite often ingenious experiments. Among other things, he has used dummies to measure the strength of different key stimuli as regards their ability to elicit corresponding fixed action patterns. He made the important observation that 'supranormal' stimuli eliciting more intense behavior than those of natural conditions, may be produced by exaggerating certain characteristics.

The discoveries made by this year's Nobel prize laureates were based on studies of insects, fishes and birds and might thus seem to be of only minor importance for human physiology or medicine. However, their discoveries have been a prerequisite for the comprehensive research that is now pursued also on mammals. Studies are devoted to the existence of genetically programmed behavior patterns, their organization, maturation and their elicitation by key stimuli. There are also studies concerning the importance of specific experiences during critical periods for the normal development of the individual. Research into the behavior of monkeys have demonstrated that serious and to a large extent lasting behavior disturbances may be the result when a baby grows up in isolation without contact with its mother and siblings or with adequate substitutes. Another important research field concerns the effects of abnormal psychosocial situations on the individual. They may lead not only to abnormal behavior but also to serious somatic illness such as arterial hypertension and myocardial infarction. One important conclusion is that the psychosocial situation of an individual cannot be too adverse to its biological equipment without serious consequences. This holds true for all species, also for that which in shameless vanity has baptized itself 'Homo sapiens'.

Karl von Frisch, Konrad Lorenz, Nikolaas Tinbergen,

According to an old fable, cited by one of you, king Solomon is said to have been the owner of a ring that had the mystical power to give him the gift of understanding the language of animals. You have been the successors of king Solomon in the respect that you have been able to decode the information that animals pass to each other, and also to elucidate the meaning of their behavior to us. Your ability to find general rules underlying the confusing manifold of animal behavior makes us sometimes believe that king Solomon's ring has in fact been available also to you. But we know that you have been working in an empirical way, collecting data and interpreting it according to hard and fast scientific rules.

Aside from their value in themselves, your discoveries have had a farreaching influence on such medical disciplines as social medicine, psychiatry and psychosomatic medicine. For that reason it was very much in agreement with the spirit of Alfred Nobel's will when the medical faculty of the Karolinska Institute awarded you this year's Nobel Prize.

We are proud to have two of you, professor Konrad Lorenz and professor Nikolaas Tinbergen, with us today, and we are also grateful to professor Karl von Frisch that he has sent his son, professor Otto von Frisch, to represent him here.

On behalf of the Karolinska Institute I wish to convey to you the warmest congratulations and I now ask you to receive your prize from the hands of His Majesty the King.


Epigenetics in 1952-53

 
This week's Citation Classics are, indeed, classics [This Week's Citation Classics: Host Induced Variation]. They were the first papers to describe a new form of non-Mendelian inheritance that eventually became well-understood at the molecular level. Today, scientists working on animal development think they have independently discovered this concept. They call it epigenetics.

As John Dennehy says,
Today epigenetics is all the rage, but it has its roots in a pair of papers appeared nearly simultaneously in 1952-1953.


John Hawks and Comments

John Hawks is writing a series on blogging and tenure. In the last installment, How to blog, get tenure and prosper: A very useful engine, he discusses reasons for blogging. You should read the whole thing, but I'd like to focus on one small part.

John Hawks does not allow comments on his blog. It's the only science blog that I know of with a no-comment policy.1 Here's why, according to Hawks,
For some people, the most rewarding part about a blog is the immediate feedback from comments. Others dislike the comment section, whether it’s the constant battle against spam, or the trolls, or the pressure to respond to comments.

Personally, I can let a question sit in my inbox for a long time (as some of you know!), but I wouldn’t tolerate it sitting unanswered on my site. That’s my most important reason for not having a comments section: I think about posts, and I think about replies, and comments don’t generally give much time for thinking. The sites I like the best take a hybrid approach: They include questions or comments from readers, but do not have a “comments section” for each post. That kind of full-moderation, indirect feedback still can provide the sense of interaction and community, but without the repetition, trolling, and off-topic digressions that often emerge in comments sections. That’s only my preference, though—you may feel differently.

Will your commenters hurt your tenure case? I don’t think it really matters whether you have comments or not, assuming that you keep out the spam and discourage bad behavior. Probably the most important thing, as I’ll describe in the next installment, is that you mind your university’s use guidelines. As long as you follow the rules, your readers and evaluators are almost certainly smart enough to understand that your commenters are not you.

A healthy, lively comment ecosystem will add to the value of your blog. Your regular commenters help to give your site an identity by giving it a sense of community. Pointing to the community element can help to sell your site to your committee. University mission statements often include ideas like “building learning communities,” or “providing to underserved communities” (more on this in part 4 of the series). A healthy comments section is evidence that you are indeed serving a community.

An anemic comment ecosystem, mostly a monoculture invaded by the occasional weed, will subtract value from your blog. Imagine that someone visited one of your classes. Would you want to show a class where the students just wouldn’t participate? Or where one student always stood up after the lecture and announced that your ideas were garbage? You don’t want to say you’re serving an active community, while your blog comments appear to give concrete evidence that you’re not.

As you approach your tenure review, you have to think carefully about how to sell your blog to a committee. Then take action: Shut down your comments for a while, or put them on full moderation, encourage your e-mailers to submit comments, or make a concerted effort to draw comments from students or people in your field. As you plan ahead, you can think of the best way to accentuate the positives, and a small force applied early may save a lot of explaining later.
Since you can't discuss these ideas on John's blog, I'm giving you the chance here. From my prespective, comments are the most fun part of blogging. I love the discussions that go on in the comments and I love to provoke debate by posting on controversial topics. It's what science is all about, as far as I'm concerned. I've learned a lot from commenters who disagree with what I write.

I don't ever want to censure anyone who comments on my blog—although there are one or two who test my patience. Personally, I don't think the downside of commenting is all that bad and it does very little to diminish the upside. On the other hand, there are blogs where the chaff is much more obvious than the wheat and I don't even bother reading the comments. I don't know how you would prevent that.


1. It's also one of the few blogs from a university professor with a disclaimer at the bottom of each posting. I wonder if this is a special rule at the University of Wisconsin?

Chance and Necessity

 
Thanks to Ryan Gregory [Blogs by Scientists], I've just added a new blog Chance and Necessity to my list of must-reads. As you might guess from the title, this blog is devoted to evolution. It's published by a "faculty member in the South"—presumably this means southern USA and not Australia or Chile.

Here are two teasers to tempt you to follow Ryan's suggestion and read Chance and Necessity. The first is Increasing neurogenesis in the adult mammalian brain ...
The conventional wisdom is that we are born with all the brain cells we’re ever going to have, and it’s all downhill from there—as we age, we lose brain cells, never to replace them. This, of course, explains why teenagers are so much smarter than their parents. Unfortunately for the conventional wisdom, it’s wrong.
The second is a posting on the debate over the significance of evo-devo; especially the claim that most morphological changes in animals are due to change in regulatory sequences and not in coding regions of protein [Incorporating evo-devo and the genetics of morphology].
Scientific controversies typically consist of vigorous exchanges of ideas with periodic injections of new data that may shape the debate. Personalities can certainly influence the path these controversies take, but the ultimate arbiter is data, not drama. In the field of evolutionary developmental biology (evo-devo) we can witness just such a lively situation, both in the literature and at meetings.
Read the comments to this posting. You'll find intelligent people discussing whether natural selection or random genetic drift accounts for morphological change. This is such a refreshing change from blogs where any challenge to adaptationist explanations is viewed as extreme heresy.


This Is Not a Spider

 
It's not a spider but I'm not going to tell you what it is. In order to find out, you'll have to go to Catalogue of Organisms and read up on these species. At the same time you'll discover why Christopher Taylor posts an article with the title: In Which I Reveal Just How Much of a Freak I Am.

Good luck Christopher, I don't think that's a freaky thing to do. I think it's cool.


FOX vs NPR

 
Canadian Cynic recently informed us of an American college professor who claims that his conservative students are smarter than his liberal students.

A bit of background. Peter Schweizer published an article in the National Post where he took issue with the widespread belief that liberals in America are smarter than conservatives. Apparently, George Bush has a higher IQ than other presidential candidates and got higher grades in school [The arrogance of uneducated liberals].
Popular culture has greatly contributed to the myth of ignorant conservatives and enlightened liberals. One study by a group of academics found that by examining 124 characters in 47 popular political films spanning five decades, liberals were routinely depicted as “more intelligent, friendly and good” than conservatives.

The arrogance of some liberals in this regard is astonishing. You don’t even have to be highly educated yourself to complain about how uneducated conservatives are. Michael Moore, college dropout, travels all over Europe talking about how “idiotic and uneducated” conservatives are. He also said: “Once you settle for a Ronald Reagan, then it’s easy to settle for a George Bush, and once you settle for a George Bush, then it’s real easy to settle for Bush II. You know, this should be evolution, instead it’s devolution. What’s next?”
Sounds about right to me.

One of the commenters (jdcarmine) on the National Post website chimes in with ...
Wonderful! I am a college professor and this is even more stunning when comparing liberals and conservatives. For example, last semester none of my liberal students had even the foggiest notion where Iran was relative to Israel and none could find the West Bank on a map. None knew where China and Russia were relative to the Middle East. But...All the conservative students knew these basic facts which made it easier for conservatives to discuss the significance of the Iraq war whereas the liberals could only spew platitudes about it.
Now here's the fun part. Canadian Cynic quotes a study done some years ago by WorldPublicOpinion.org [Misperceptions, the Media and the Iraq War] They asked about three misconceptions concerning the war in Iraq: (1) there were links between Iraq and al Qaeda; (2) weapons of mass destruction had been found in Iraq; (3) world public opinion supports the US invasion of Iraq.

They then compared the number of people who believed none of these misconceptions with their source of news. This is an indication of the politics of the people in the survey. People who watch FOX news are assumed to be more conservative that those who get their information from NPR. Here are the results ...
I think Canadian Cynic has a point. Sure, this doesn't prove that conservatives are stupid and liberals are smart, but it sure says something about gullibility and it's reasonable to assume that there might be a correlation between that and intelligence.1


1. I get most of my American news from CNN. I guess that makes me about average in intelligence. My main concern is that watching Larry King and Lou Dobbs will make me dumber than I am already.

Monday, August 04, 2008

Science and Philosophy Book Club: Wonderful Life

 
The Science and Philosophy Book Club is discussing Stephen Jay Gould's Wonderful Life this Thursday at CFI [Stephen Jay Gould's "Wonderful Life"]. Come to the Center for Inquiry on Beverley St. at 7pm on Thursday August 7th. A $2 donation is required. Bring something to eat.

You can sign up on the website and let everyone know if you are coming.

Wonderful Life is one of my favorite books. Apparently the central messag is very difficult to understand since so many people get it wrong. I've seen very bitter attacks on the central theme from people like Daniel Dennett in Darwin's Dangerous Idea (1995). He says,
I mentioned in chapter 2 that the main conclusion of Gould's "Wonderful Life: The Burgess Shale and the Nature of History" (1989) is that if the tape of life were rewound and played again and again, chances are mightly slim that we would ever appear again. There are three things about this conclusion that have baffled reviewers. First, why does he think it is so important? ... Second, exactly what is his conclusion—in effect, who does he mean by "we"? And third, how does he think this conclusion (whichever one it is) follows from his fascinating discussion of the Burgess Shale, to which it seems almost entirely unrelated?
Dennet is often referred to as "Dawkins' lapdog", a sarcastic reference to the relationship between Charles Darwin and Thomas Huxley.1 It should come as no surprise that Richard Dawkins didn't like Wonderful Life either, and for many of the same reasons that Dennet parroted in Darwin's Dangerous Idea. Here's what Dawkins said in a review published in 1990 and reprinted in A Devil's Chaplain.
How should Gould properly back up his claim that the Burgess fauna is super-diverse? He should—it would be the work of many years and might never be made convincing—take his ruler to the animals themselves, unprejudiced by modern preconceptions about "fundamental body plans" and classification. The true index of how unalike two animals are is how unalike they actually are. Gould prefers to ask whether they are members of known phyla. But known phyla are modern constructions. Relative resemblance to modern animals is not a sensible way of judging how far Cambrian animals resemble one another.

The five-eyed, nozzle-toting Opabinia cannot be assimilated to any textbook phylum. But, since textbooks are written with modern animals in mind, this does not mean that Opabinia was, in fact, as different from its contemporaries as the status "separate phylum" would suggest. Gould makes a token attempt to counter this criticism, but he is hamstrung by dyed-in-the-wool essentialism and Platonic ideal forms. He really seems unable to comprehend that animals are continuously variable functional machines. It is as though he sees the great phyla not diverging from early blood brothers but springing into existence fully differentiated.

Gould then, singularly fails to establish his super-diversity thesis. Even if he were right, what would this tell us about the 'nature of history'? Since, for Gould, the Cambrian was peopled with a greater cast of phyla than now exist, we must be wonderfully lucky survivors. It could have been our ancestors who went extinct; instead it was Conway Morris' 'weird wonders', Hallucigenia, Wiwaxia, and their friends. We came 'that close' to not being here.

Gould expects us to be surprised. Why? The view that he is attacking—that evolution marches inexorably towards a pinnacle such as man—has not been believed for years. But his quixotic strawmandering, his shamless windmill-tilting, seem almost designed to encourage misunderstanding (not for the first time: on a previous occasion he went so far as to write that the neo-Darwinian synthesis was 'effectively dead'). The following is typical of the publicity surrounding "Wonderful Life" (incidentally, I suspect that the lead sentence was added without the knowledge of the credited journalist): 'The human race did not result from the "survival of the fittest", according to the eminent American professor, Stephen Jay Gould. It was a happy accident that created Mankind.' Such twaddle, of course, is nowhere to be found in Gould, but whether or not he seeks that kind of publicity, he all too frequently attracts it. Readers regularly gain the impression that he is saying something far more radical and surprising than he actually is.

Survival of the fittest means individual survival, not survival of major lineages. Any orthodox Darwinian would be entirely happy with major extinctions being largely a matter of luck. Admittedly there is a minority of evolutionists who think that Darwinian selection chooses between higher-level groupings. They are the only Darwinians likely to be disconcerted by Gould's 'contingent extinction'. And who is the most prominent advocate of higher-level selection today? You've guessed it. Hoist again!
I'm amused that an ethologist is lecturing a paleontologist on how to interpret the fossil record.


1. First mentioned by Stephen Jay Gould in Darwinian Fundamentalism in the New York Review of Books, "If history, as often noted, replays grandeurs as farces, and if T.H. Huxley truly acted as 'Darwin's bulldog,' then it is hard to resist thinking of Dennett, in this book, as 'Dawkins's lapdog.'"

Sunday, August 03, 2008