How the tapir got his spots

August 4, 2009 • 7:11 am

by Greg Mayer

A while back Jerry posted a video of lion cubs at the Tulsa Zoo, and noted that they have spots, remarking

Many species of cats show this pattern in the cubs, even if the pattern disappears with growth.  It almost certainly reflects (as discussed in WEIT), an atavistic trait: the persistence in a descendant of traits that were adaptive only in an ancestor.  I suspect that the ancestor of lions had spots as adults, and that’s why they show up, briefly, in lion cubs.

I posted a comment to the effect that Hugh Cott, the great student of adaptive coloration, agreed with Jerry, although I wasn’t so sure:

Hugh Cott, in his classic “Adaptive Coloration in Animals” (Methuen, 1940) agreed with Jerry on this: “Among mammals and birds, first liveries acquired by the young– whether this happens before or after birth– often differ widely from the full dress of their parents. But it must not be assumed that such differences are necessarily adaptive. Lion cubs have spotted coats, and their tails are ringed…[Cott gives some more cat examples]… Since the kittens of all these animals…are born in sheltered dens or holes, carefully hidden or guarded by the mother, the spotted pattern can hardly be explained as protective.”(p. 21). I’m not so sure, though. Lions are not sheltered in dens or burrows, but rather are kept in thickets and kopjes, and may be on their own for a day at a time (George Schaller, “The Serengeti Lion” [Chicago, 1972], so the spots might be protective coloration for keeping the young hidden before they become formidable individually. (Protective coloration in the young is well known in mammals– whitetailed and mule deer, and tapirs, being good examples: their young bear dots and vermiculations that blend with sun- or moon-dappled forest floors.)

Since then, Jerry and I have conducted an off-blog discussion on this, and he has particularly challenged me with regard to tapirs.  While tapirs (and lions!) present many interesting aspects of natural history, the general question is one one of fundamental conceptual importance for evolutionary biology: how do you tell if a feature of an organism is an adaptation? So I’m going to pursue this question over a few posts.  To set the scene, let’s introduce tapirs. The best web source of info on them is the IUCN‘s Tapir Specialist Group.

Baird's Tapir at Franklin Park Zoo, Boston (from Wikipedia)
Baird's Tapir at Franklin Park Zoo, Boston (from Wikipedia)

Tapirs, along with horses and rhinoceroses, are odd-toed ungulates, members of the mammalian order Perissodactyla, which is the less species-rich of the two great extant orders of hoofed mammals. (Most hoofed mammals, such as deer, antelope, cattle, sheep, pigs, etc., are even-toed, members of the  Artiodactyla.) There are four species, all of which have short trunks.  Three are in the Neotropics (Tapirus bairdii, T. pinchaque, and T. terrestris), found from southern Mexico to northern Argentina. As adults, they are all more or less uniformly colored, brown to gray to black. The Malay tapir (T. indicus) of southeast Asia, however, is strikingly particolored.

MalayTapir_Wikipedia
Malay Tapir at Regents Park Zoo, London (from Wikipedia)

I’ll show some baby tapirs in the next post.

Guest blogger!

August 4, 2009 • 7:06 am

The Significant Otter is visiting, and so my posting will be sporadic for the next couple of weeks.  But never fear, Dr. Greg Mayer will be taking over regular posting duties during that time (including the critical Caturday Felids). In case you don’t know Greg, you can read about him here. He’s an evolutionary biologist, and not a shrill militant radical postmodern atheist, so you can expect lots of good biology and not so much screeching.

Andrew Brown can’t stop whingeing

August 3, 2009 • 7:07 am

If the word “faitheist” were in the dictionary, its illustration would be the smug mug of Andrew Brown, the goddycoddling columnist at The Guardian. As we’ve seen before (e.g., here and here), Brown likes to blame the “new atheists” for a lot of things, including the prevalence of creationism in the U.S. (sound familiar?).

In his latest column, Brown goes after Sam Harris for his New York Times op-ed piece questioning the wisdom of appointing Francis Collins as head of the NIH.  But before he misquotes Harris, Brown can’t resist taking a few gratuitous slaps at him, just to show that atheists are full of “intolerance and hatred”:

Shallow, narrow, and self-righteous, he [Harris] defends and embodies all of the traits that have made organised religion repulsive; and he does so in the name of atheism and rationality. He has, for example, defended torture, (“restraint in the use of torture cannot be reconciled with our willingness to wage war in the first place”) attacked religious toleration in ways that would make Pio Nono blush: “We can no more tolerate a diversity of religious beliefs than a diversity of beliefs about epidemiology and basic hygiene” ; he has claimed that there are some ideas so terrible that we may be justified in killing people just for believing them. Naturally, he also believes that the Nazis were really mere catspaws of the Christians. (“Knowingly or not, the Nazis were agents of religion”).

I suggest you read Harris on these issues; his positions are far more nuanced than Brown lets on.  For example, it is a thorny philosophical question whether torture can ever be justified to save the lives of others (Harris thinks that it might sometimes be ethical but perhaps never legal).

But Brown’s real beef is that Harris criticized Collins’s religion.  And here he completely mischaracterizes what Harris said:

But he [Collins] is, unashamedly, a Christian. He’s not a creationist, and he does science without expecting God to interfere. But he believes in God; he prays, and this is for Harris sufficient reason to exclude him from a job directing medical research.

Of course this is a fantastically illiberal and embryonically totalitarian position that goes against every possible notion of human rights and even the American constitution. If we follow Harris, government jobs are to be handed out on the basis of religious beliefs or lack thereof. But what is really astonishing and depressing is how little faith it shows in science itself.

ok, read what Harris said.  He did not say that Collins should be excluded from consideration.  Harris, like me, is simply worried about Collins using his status as NIH director to spread wacko religious ideas.  Harris has the additional concern (one that I don’t really share) that Collins might deflect research away from understanding the human brain and the behavior it engenders:

Dr. Collins has written that “science offers no answers to the most pressing questions of human existence” and that “the claims of atheistic materialism must be steadfastly resisted.”

One can only hope that these convictions will not affect his judgment at the institutes of health. After all, understanding human well-being at the level of the brain might very well offer some “answers to the most pressing questions of human existence” — questions like, Why do we suffer? Or, indeed, is it possible to love one’s neighbor as oneself? And wouldn’t any effort to explain human nature without reference to a soul, and to explain morality without reference to God, necessarily constitute “atheistic materialism”? Francis Collins is an accomplished scientist and a man who is sincere in his beliefs. And that is precisely what makes me so uncomfortable about his nomination. Must we really entrust the future of biomedical research in the United States to a man who sincerely believes that a scientific understanding of human nature is impossible?

Brown isn’t the first person to mischaracterize what Harris and his militant neo-fundamentalist atheist cronies said about Collins.  In a letter to the New York Times, Kenneth Miller did the same thing.  Distortion, demonization, and prissy accusations about “shrillness” seem to be the armamentarium of faitheists and religious people who are unable to engage the substantive arguments of new atheists.

Brown goes on to make some bad arguments about the relationship between science and faith. He gloats that no scientific discovery could ever shake Collins’s faith, “any more than science made Darwin an atheist.” (I’m not so sure about that one, actually.  Certain empirical observations might well have eroded Darwin’s faith: the death of his daughter Annie, for example, as well as his famous observations about the horrors of nature, like the ichneumon wasp, which to Darwin argued against the existence of a benevolent god.)  Thus, when Brown says that Collins need never abandon his faith because “all the best arguments against God are theological,” he’s just wrong.  The best arguments against God are empirical, most prominent among them the argument from evil.  As far as I can see — and yes, I’ve read theology — there has never been a better refutation of the idea of a loving and omnipotent god than the existence of horrible, god-preventable things happening to innocent people.  That’s an empirical observation, and the world didn’t have to be that way. Another, of course, is that prayer doesn’t work.  Yet another is the observation that God seems to heal some people, but sorely neglects those amputees (see Fig. 1).  Finally, the theistic God obstinately refuses to show himself to people, although he supposedly interacts with the world.

amputeese-10Figure 1.  Why does God hate amputees?

Brown finishes by again misstating Harris’s views:

. . .But militant atheism, of the sort that would deny people jobs for their religions beliefs, doesn’t actually believe in real science at all, any more than it believes in reason. Rather, it uses “science” and “reason” as tribal labels, and “religion” as a term for witchcraft. Any serious defence of the real, hard-won and easily lost enlightenment must start by rejecting that style of atheism entirely. What use is it to be right about God and wrong about everything else?

WRONG.  None of us “militant atheists” want to deny Collins his job because of his faith.  And it’s just dumb to say that we don’t believe in real science.  I do real science every day.  As for labeling religion as “witchcraft,” well, are the two forms of superstition really so different?

Brown’s overall complaint seems to be that Harris’s writings are so popular — that “hundreds of thousands of people bought the books, and perhaps the ideas in them.”  I suspect Brown’s books haven’t sold nearly as well, though (no suprise!) he won a Templeton Prize for religion journalism.  I do feel sorry for Brown, though:  it can’t be pleasant to write a Guardian column where most of your commenters rip your arguments to shreds.

WhineFest: student sues college for tuition

August 3, 2009 • 4:53 am

It was inevitable.  A student at Monroe College, a business school in the Bronx, is suing the school for $70,000 because she didn’t find a job.

The 27-year-old information-technology student accuses the school’s Office of Career Advancement for not living up to its end of the deal and offering her the leads and employment advice it promised, according to The New York Post.

“They have not tried hard enough to help me,” the beleaguered Bronx resident wrote in her lawsuit, filed July 24 in Bronx Supreme Court.

Wisconsin father convicted of homicide; prays instead of taking daughter to doctor

August 2, 2009 • 8:09 am

Dale Neumann of Wisconsin was convicted of reckless homicide for failing to seek medical help for his 11-year-old daughter, who suffered from treatable diabetes. His wife was convicted earlier for the same incident.

In the two days before her death, Kara, as the girl was known, grew increasingly tired and thirsty. Her appetite disappeared and she soon lost the ability to walk or talk. Prosecutors say her parents noticed the changes but didn’t do what most parents would do under such circumstances.

Instead of calling a doctor when Kara lapsed into unconsciousness in her final hours of life, they prayed. They called family members and friends, asking for more prayers and even e-mailed a faith-healing minister asking for emergency prayers.

Kara died on Easter 2008 of diabetes — a disease that had ravaged her body but with which she hadn’t been diagnosed.

. . . Quoting scripture and speaking with great conviction, Neumann made it obvious that he had no regrets about his decision.

From here:

Neumann, who once studied to be a Pentecostal minister, testified Thursday that he believed God would heal his daughter and he never expected her to die. God promises in the Bible to heal, he said.

“If I go to the doctor, I am putting the doctor before God,” Neumann testified. “I am not believing what he said he would do.”

I guess God didn’t come through this time.  All part of His incomprehensible plan, I guess.

madeline_kara_neumann_11yo_3.23.08-671x451

Madeline Kara Neumann, killed by faith

The harmonious ape

August 1, 2009 • 11:48 am

Speaking of animals and dissonance, an upcoming article in the journal Primates investigates the question of whether our closest living relative, the chimp, shows a preference for consonant over dissonant music.  The answer is yes, suggesting that the human preference for consonant music lies in our genes.  But be aware that this result is based on just a single chimp.

Background:  Humans prefer consonant over dissonant music, as consonance “evokes a pleasant feeling.”  The fact that the human preference is seen in infants as young as two days old suggests that this preference is inborn rather than learned.  Animals as distantly related as birds can distinguish between the two types of music, but studies of another primate, the cotton-top tamarin (Saguinus oedipus) showed no preference for consonance.  The authors of this study looked at a closer relative to see if perhaps the trait “preference for consonance” might not only be genetically based, but also have appeared in the primate lineage more recently.

Methods and materials:  The authors studied, over six weeks, a single five-month-old female chimpanzee (Pan troglodytes) named Sakura. She had been reared in a zoo by humans, as her mother had rejected her.  The authors claim that she had never been “exposed to any particular music source such as a radio, TV, or CD player throughout her development. . ”

Sakura was strapped onto a bed with a soft belt, and was forced to listen to either consonant or dissonant music.  There were six sets of computer-generated music, each set consisting of a consonant piece and a nearly-identical dissonant piece, in which some of the notes had been swapped for dissonant ones (see paper for further details).  A string was attached to her right arm (see Fig. 1), and by pulling this string she could affect whether the music stayed the same or changed to the alternative version (i.e., consonant to dissonant or vice versa).  The recorded music began. If the chimp pulled the string within seven seconds, the same music would continue playing for up to two minutes.  If she pulled the string between 7 and 14 seconds, the music would also continue, but with a pause of a few seconds.  If she waited longer than 14 seconds to pull the string, the music would change to the alternative version. Sakura was tested once per week for the six week period.

Chimp

Fig. 1. Sakura in bed, choosing the music that appeals (from original paper).

Results:  The mean duration of consonant music sessions for Sakura was 24.6 seconds, but only 15.9 seconds for the dissonant music. Statistical analysis of the sessions (each including about 10 bouts of each type of music) showed that this difference was significant.  That is, there was a significant preference for the consonant tunes over their dissonant alternatives. When Schoenberg was played, Sakura became very agitated and flung feces at the observers (kidding!)

What it means:  The authors interpret this result as suggesting that “one of the major factors that constitute musical appreciation might not be unique to humans; instead it might be something that we share with our phylogenetically closest relatives.” That is, dissonant tones may affect the nervous systems of chimps and humans in similar ways, and lead to similar subjective sensations.  That seems to be a reasonable conclusion, although of course we need studies where the number of primates exceeds one.

The authors note one potential flaw in the work: suppose that the dissonant music caused the chimp to relax more.  Then she would be less inclined to pull the string when that music was playing, and according to the experimental protocol the music would then change over to the consonant form. This could give the impression that she preferred the consonant over dissonant music as a simple experimental artifact.  The authors say that they consider this possibility “unlikely,” but they didn’t control for it.  One way would be to change the experimental protocol in a separate experiment so that the music would change over when the string was pulled quickly rather than after a longer interval.

One question the authors don’t bring up is whether animals of any sort produce consonant rather than dissonant music.  Do birds, for example, tend to sing consonantly rather than dissonantly?  I am a music tyro and don’t know the answer.  However, the efficacy of animal communication may rest on things other than whether it’s pleasant for them to hear.

________________
T. Sugimoto, H. Kobayashi, N. Nobuyoshi, Y. Kiriyama, H. Takeshita, T. Nakamura, and K. Hashiya.  2009. Preference for consonant music over dissonant music by an infant chimpanzee. Primates, in press.

Caturday felids: Dante and Schoenberg

August 1, 2009 • 5:45 am

Two classical kittehs today; the first is a photo of Dante in a bookshop window, sent by a friend in Poland.

The sign reads, “I’m alive, I’m asleep!  Do not knock on the window.  Dante, cat.”

Dante

Fig. 1.  Dante at rest.

And here is a video of cats playing Schoenberg, Opus 11, part 1, compiled, note by painful note, by Cory Archangel.  As Tom Service says in a description of this video in the Guardian:

This comes close to genius. Or borderline obsessive compulsion: Cory Arcangel‘s re-creation of Arnold Schoenberg’s Three Piano Pieces, op. 11, edited from YouTube’s sub-culture of piano-playing cats. All 170 of them.

Cory spent “a few months of free time” making these videos, with the help of a software program called Comparisonics, that allows you to search for similar sounds in audio files, using Glenn Gould’s recording of the Schoenberg as his litmus test to compare with YouTube’s cats. And the result is one of the great victories of transcendent, purposeful purposelessness on the internet.

For those masochists who love Schoenberg (or kittehs) enough to want more, here are the other two parts.

part 2

part 3

And here is the piece Archangel was trying to copy: the original performed by Glenn Gould.

“Birthers” a majority among Republicans

July 31, 2009 • 9:51 am

Well, this is a sad observation about the power of evidence to convince people of facts: a Daily Kos poll shows that fewer than half (42%) of Republicans are convinced that Obama was born in the U.S. (28% believe that he was not born in the U.S. and 30% are unsure).

Now how do you suppose those “birthers” manage to explain Obama’s original birth announcement in the Honolulu Advertiser, and all the other evidence for his birth in Hawaii?  It must be a conspiracy: people planted that announcement in the newspaper way back in 1961, anticipating that some kid named Barak, born outside the USA, would grow up to be elected president.

58% of Republicans don’t accept good evidence.  That’s truly an “unscientific America”!  Does this mean that people’s willingness to face facts is affected by their preconceptions and biases?

Naah, it must be those atheist-scientists whose shrillness has driven Americans away from accepting evidence, and who just won’t shut up.