Saturday, January 30, 2016

The Pupfish of Nevada

"The pupfish of Nevada" sounds like a great title for a folk song, like the Hunters of Kentucky or Moon of Alabama.(*)

Devils Hole pupfish is pair at far right at 2:00. Amagosa pupfish is pair at 5:00
(*) Yeah, TOF knows: Berthold Brecht and all that; but Dave van Ronk done sung it and that makes it a folk song. So there.

Getting Specious

This ain't nothing but a hound dog.
The notion of species is somewhat elastic in biology, expanding and contracting with the desire to uncover new ones. The usual definition, due to Mayr, is that a species is a population that can interbreed to produce fertile offspring. But this is problematic. The Northern Spotted Owl, so recently famous enough to drive loggers out of work, is interfertile with the California Spotted Owl (and the Mexican Spotted Owl), about which few bothered their pretty little heads because they were as common as ticks on a hound dog. So the definition was extended slightly to include populations that could interbreed, but in fact do not for behavioral or geographical reasons. Recently, the African elephant was discovered to be two different species. Who knew. The sundry snail darters of Tennessee were deemed separate species because, while interfertile, they dwelt in separate branches of the Tennessee River system and did not dart into the same singles bars. The two gyres of Atlantic tuna do not arrive at mid-ocean at the same time of the year, presumably due to the Atlantic slowly widening over time, and thus do not have the opportunity to embrace the elusive Other. But if we accept this, what are we to make of the Eskimo and the Hottentot, who likewise in the common course of nature do not date very often.

In sum, dogs/wolves (and polar bears/grizz) are separate species despite being interfertile while otherwise identical populations are accounted as separate species on other grounds entirely, such as to block a damn or logging. This sort of thing tends to bug mathematicians, who prefer their terms well-defined.

Meanwhile, the idea of species per se sits poorly on plants and not at all on asexual critters, not to mention some fungi of weirdness that alternate between asexual and bisexual generations.


It has become a truism today that species evolve by
  • mutations of randomness
  • filtered by natural selection
 As Darwin noted, this is a negative filter and neatly explains why species are not unfit. It does not readilyexplain where species come from, however. That requires the elusive Favorable Mutation, although "favorable" is one of those teleological terms, implying a preferred direction, and Moderns like to think they have done away with telos. However, the assumption is that enough of this sort of thing will cumulatively account for evolution over the very long term and not simply greater fitness of the species.

This led to the Darwinian Just-So Story. These stories take some trait: the peacock's tail, the Purple Emperor butterfly's diet, human speech, and so on, and spins an "adaptation tale" that shows how it is an evolutionary advantage to have it. (Of course, there are other species who do not have the trait, so the task is also to show how not having it is also advantageous.) There is no requirement to show that this story is in fact what did take place. It must merely sound plausible.

An example is the preference of the Purple Emperor butterfly to dine on carrion and fecal matter. Euuw! Adaptationists love to explain outre and transgressive behaviors, the more outre the better. In this case, the "reason" is that "the males replenish themselves after mating with sodium and other chemicals from the rotting matter." Thus we see, says philosopher Mary Midgley, the conscientious butterfly holding its proboscis and resolutely taking its medicine so as to be sure of keeping its love-life in order. 

 Presumably, Purple Emperors too fastidious to dine in this manner proved unfit and dropped out of the gene pool.The problem is that there is seldom any evidence for these evolutionary losers.

 But as Midgley goes on to say:
A recent controversy about the origins of nose-picking in humans showed the oddity of this. Since this habit is common, scientists suggested an amazing number of arcane physical mechanisms by which it might have directly improved people’s survival-prospects. What nobody did was to ask about this habit’s relation to motives – for instance to curiosity, to our tendency to explore and investigate things. Like other primates we like to pry into mysterious places such as holes and this interest surely has affected our species-survival in many ways, both helpful and otherwise. The details of the endless acts that it produces don’t matter; what affects survival is the general interest. Thus, human behaviour is not a ragbag of disconnected behaviour patterns with separate evolutionary histories. What evolves is an emotional constitution which shapes our lives as a whole. We have to explain particular actions by finding their place in it. [emph. added]
IOW, there is nothing particularly advantageous about nose-picking -- unless explaining it enables one to obtain grant money. That can be advantageous, we suppose. The advantage of the holistic approach is that it not only accounts for nose-picking, but also grant-seeking.

Charles Darwin wasn't always
old and bearded
Interestingly enough, Darwin himself did not engage in adaptationist Just-So stories. In fact, he insisted that while natural selection was the primary source of speciation, it could not possibly be the only source. He devoted an entire section of The Descent of Man to what he called "sexual selection." He considered this to be quite distinct from natural selection, although Late Moderns tend to lump the two together. They think "natural" is an adjective modifying the term "selection." But what Darwin meant was that Nature played the role of the metaphorical selector.

In sexual selection, what matters is the aesthetic preference of the females, and it is a genuine, no-fooling actual selection taking place.

His Victorian compadres didn't catch on. They had convinced themselves that beauty was subjective and subjective things did not really exist. But ol' Chuck doubled down.
Hey, babe! Come here often? How ya like these feathers?
"The case of the male Argus pheasant is eminently interesting, because it affords good evidence that the most refined beauty may serve as a charm for the female, and for no other purpose. We must conclude that this is the case, as the primary wing-feathers are never displayed, and the ball-and-socket ornaments are not seen in their full perfection, except when the male assumes the attitude of courtship.... Many will declare that it is utterly incredible that a female bird should be able to appreciate fine shading and exquisite patterns. It is undoubtedly a marvellous fact that she should possess this almost human degree of taste, though perhaps she admires the general effect rather than each separate detail. He who thinks that he can safely gauge the discrimination and taste of the lower animals, may deny that the female Argus pheasant can appreciate such refined beauty; but he will then be compelled to admit that the extraordinary attitudes assumed by the male during the act of courtship, by which the wonderful beauty of his feathers is fully displayed, are purposeless; and this is a conclusion which I for one will never admit.” [emphases Midgley's]
Mwahahah! You can run
but not hide!
Charm, taste, beauty... Darwin placed a clear emphasis on the subjective preferences of the female birds. Adaptive natural selection may play a role, perhaps not quite so important as Darwin thought. Right to the end, he kept looking over his shoulder at Lamarck. Natural selection is an entirely negative filter. It could account for maintenance of type, since it winnowed out the less fit gray squirrels; but it could not account for the fact of the gray squirrels themselves.

There is a sense in which Lamarck was on to something, but it turns selection inside out. What makes a trait "favorable" or not depends in large measure on what an organism is trying to do. Thus, a trait may become favorable because the members of a species have sufficient plasticity that they can adapt their behavior to the trait, not because the trait adapts them to the behavior.

This cuts against the grain of the Early Moderns, who regarded the lower animals as meat puppets enslaved to a instinct. But Aristotelian instinct was more supple than machine-agers assumed, and Darwin's sexual selection points toward it. It matters what the organism is trying to do.

Which brings us back to the pupfish.

It seems that natural selection is more actively selective than previously believed. 
Devil's Hole pupfish
The entire species of the Devils Hole pupfish lives in a rocky pool, 20 meters long and three meters wide, in a cave entrance in Death Valley, California. In 1976, conservationists established the fish in other pools elsewhere just in case Devil's Hole dried up. "But the refuge-bred fish began to look different, with deeper bodies and smaller heads, although all the fish [were] pretty much the same genetically."

Sean Lema, a graduate student at UC Davis, and Gabrielle Nevitt, professor of neurobiology, physiology and behavior, ... reared a related but unthreatened species, the Amargosa pupfish, in the lab on a restricted diet and with slight changes in water temperature. The Amargosa pupfish began to look more like the wild Devils Hole pupfish."

In other words, one kind of pupfish changed into another kind of pupfish when placed in the particular environment of the other. Significant adaptive variations appeared within two years. Since pupfish reach full maturity within 2 to 3 months and spawn from late February through the summer, that's about four or five pupfish generations. "No new information had appeared in the guppies’ DNA; instead, the expression of the existing information had altered."

This is called phenotype plasticity. The selfsame set of genes can express itself very differently, turning as it were on a genetic dime. Think of the range of variations of the domestic dog, from Chihuahua to St. Bernard, not just in size but in temperament. They range from sharp as a Border Collie to dumb as an Irish Setter, all on the same gene set. (There has been no cross-breeding with other species.) They are all variations on the theme of gray wolf. All this was accomplished within the blink of an evolutionary eye, essentially the span of human history.

Yet biologists find the speech of humans lurking in a gene (FOXP2, located on the long arm of chromosome 7 at position 31) and then say that since Neanderthals had the same gene, they must have had speech, too. They have also identified a "warrior" gene that is supposed to account for violent behavior. Koch's postulates have been forgotten, it seems.

The more we learn about genetics, it seems, the less certain we become of the origin of species -- or of the adequacy of natural selection to explain it. The lack of fit between natural selection and the fossil record is notorious. If natural selection theory were true, the evolutionary record would be a smear of continual incremental changes. Instead we see species appear almost fully formed in a geological instant and then persist until they clear out. It's not that the links are missing. It's that they should be the rule and not the exceptions. But the more we learn about epigenetics, genome plasticity, molecular edit/repair, and the like, the more it appears that evolution can be swift and specific and not a slow, gradual editing of a range of "random" mutations.

Mutations are not -- or at least, need not be -- "random." They can be focused and massive. There need not even be a mutation; simply a different expression of the same genes.

Well, what other mid-Victorian theory has survived unscathed?


  1. Sharon Begley, "Water-Flea Case Shows That Ability To Adapt Is What's Really Innate," The Wall Street Journal (April 22, 2005)
  2. Kimberly Johnson, "Lizards Rapidly Evolve After Introduction to Island," National Geographic News (April 21, 2008)
  3. Mary Midgley, "The Mythology of Selfishness," The Philosophers' Magazine online (05 January 2016)
  4. James A. Shapiro, "Rethinking the (Im)Possible in Evolution," Progress in Biophysics and Molecular Biology (2013) 
  5. David Warren, "Phenotype plasticity." Essays in Idleness (28 Aug 2015)


  1. If you haven't already read it, you will, I think, be most interested in a new book "Evolution: Still A Theory In Crisis" by Michael Denton. He has moved from being a "Functionalist" to being a "Structuralist". It's a fascinating work. I'm keen to hear your take!

  2. I think nose-picking might be more akin to itch-scratching—or picking at scabs—rather than an expression of curiosity.

    1. *nod* I know that my kids pick their noses a lot more when it's cold; heck, I do, too, because it's got crinkly, painful chunks. (Although I uses a kleenex, of course.)

  3. fascinating. ard louis the biophysicist mentions this in a lecture he gave at a univ. in michigan.

  4. I think that the current just-so story for beauty is that it is damaged by disease and thus proves that the beautiful one is healthy.

    Of course the great thing about the origin of speciation in the modern telling is that it's not really falsifiable, since the record is so spotty, and in any event you could get a 90% mutation that just happens to be viable.

    1. That "just-so story" isn't only current, Aristotle pretty much thought the same thing. Though his view of the matter was more complex.


A gratuitous commen

  from editor, Cat Rambo, in re In the Belly of the Whale.    "I absolutely loved this rollicking, expansive generation-ship world and ...