Why Evolution is True is a blog written by Jerry Coyne, centered on evolution and biology but also dealing with diverse topics like politics, culture, and cats.
Matthew, who loves quizzes, insisted that I post this tw**t. He says “n.b. the scale is in centimeters, so it’s very big!”
I’ll let him post the answer in a few hours. He adds, “Don’t go looking! Guess!”
Here we go! Who made this track, found in ne British Columbia along a river? Tweet me your guess & RT! Answer to #NameThatTrack at 5pm MST! pic.twitter.com/rCYLrmx7Wh
I was going to make this discussion a two-part post, but after writing a bit of this post, I think I’ll divide it into three, as it would be too long. The last bit, on artificial selection for directional asymmetry, will be tomorrow.
In my first post on this issue yesterday, I discussed the problem of evolved directional asymmetry (a trait is always different on the right than on the left, and in the same direction) as opposed to antisymmetry, in which the trait varies between the right and left sides among individuals, but randomly. An example of directional asymmetry is the male narwhal’s tusk, which is an enlarged left canine tooth, so the “tusk” (the enlarged tooth) is always on the left side of the midline. An example of antisymmetry is the large claws of male fiddler crabs, which are random with respect to body size: half of male crabs have big right claws, and the other half big left claws.
Here’s one example of directional asymmetry in a species, the twospot flounder, which always develops to flatten on its right side (flounders begin developing vertically, like normal fish, but then flatten out, with the eyes migrating over the top of the head so both are on one side). Other species of flounders lie on their left sides, and some lie randomly on either side (anti-symmetry). Crossing experiments between species suggest that the directional asymmetry has some genetic basis.
SEFSC Pascagoula Laboratory; Collection of Brandi Noble, NOAA/NMFS/SEFSC. The twospot flounder lies on the seafloor on its right side, with both eyes on its left side. (From Quanta Magazine article)
My question yesterday was this: to get directional asymmetry, there must be a genetic program that recognizes right versus left so that a trait’s formation can be genetically activated on only one side of the body. But that presupposes some cue, perhaps a molecule in the internal environment, that can activate and/or repress genes on one side only.  Such cues seem unlikely in a bilaterally symmetrical organism, for the chemical “gradients” from the midline to the right or left margins should be the same for equivalent points (as opposed to the top/bottom or front/back gradient). So how, in an ancestor that is perfectly symmetrical bilaterally, can a directional asymmetry evolve? What cues could those genes use to know where they are?
Now of course once a single directional asymmetry has evolved, then there’s already a left-right difference, and further directional asymmetries can evolve cueing off of that first one. And that could, in turn, produce any number of directional asymmetries. But the question remains: how does the first directional left-right asymmetry evolve in a bilaterally symmetrical organism?
In the past eight years, scientists have been coming up with answers, and the issue is discussed in a nice piece at Quanta magazine by Tim Vernimmen. Â There are two possibilities.
In 2009, Nobutaka Hirokawa et al. reported that the “node” in vertebrate embryosâa pit in the bottom midline of the early embryoâis surrounded by cilia that beat in a rotational motion in one direction only, causing a flow of embryonic fluid toward the left. As the authors say:
Through studies of the flow of materials within cells, we serendipitously found that nodal cilia are actually motile and vigorously rotating. This rotation generates the leftward flow of extraembryonic fluid in the nodal pit. The directionality of this flow, termed nodal flow, determines laterality. Thus, quite unexpectedly, a physical process, fluid flow, was identified as the initial L/R symmetry-breaking event. In this review, we first summarize the discovery of nodal flow and then discuss how this leftward linear flow is generated in a fluid dynamic manner by the rotational movement of cilia.
You can see the directional beating of the cilia and the leftward flow of fluid in the movies embedded in Hiokawa et al.’s paperâparticularly movies 3 and 4. Have a look!
What the authors found, then, was that a directional motion of the cilia produced directional asymmetries in the embryo, so that the flow itself can differentially activate genes on the right versus left sides. But why do the cilia beat in only one direction? Well, if they all beat in different directions, there would be no fluid movement, and which direction they all “decided” to beat initially in may have been a random result of an ancestral gene. But once that’s determined, then it sets up a consistent left-right asymmetry. This may be the cue for directional asymmetry in many vertebrates. Support for this comes from the observation that mutations that damage cilia or their movement in vertebrates species cause screw-ups in the antisymmetry.
Some organisms, though, don’t have these nodes with cilia. The Quanta article implicates another instigator of handedness in such species: the presence of the protein myosin (a “motor protein”) that appears to act asymmetrically in organisms like fruit flies and worms, making cell division asymmetrical and producing  handedness. How this happens isn’t specified in the original paper nor in the Quanta article, but we know that screwing with myosin through mutations screws up handedness. Perhaps something about the asymmetry of the molecule itself induces a directionality in its action.
The figure below shows directional asymmetry in two organisms lacking ciliated nodes, the fruit fly Drosophila and the worm Caenorhabditis, as well as an organism with nodesâH. sapiens. The figure is taken from a 2011 paper by Christian Pohl:
(From paper) L-R Asymmetry of internal organs in Caenorhabditis elegans, Drosophila melanogaster and Homo sapiens. Selected organs are shown for each organism, endodermal/intestinal organs are shown in red. Lower right of each part: Schematized topology of selected asymmetries for each organism. Arrows indicate tissue movements that lead to coiling of the respective tissue.
Now there are other possible mechanisms for generating handedness as well, and I suspect that the two listed above don’t exhaust all the possibilities. Â Amino acids themselves have handedness, as all organisms use the L- configuration rather than the mirror image R- configuration. Â The figure below shows the mirror-image symmetry of a single amino acid, with has two “enantiomers”, left and right. All organisms use only the L-isomer, and the adoption of that versus R- forms may have just been an initial accident, like the directional beating of the cilia. There’s no reason why we couldn’t have proteins composed of only R- amino acids, but we couldn’t have them with both L and R forms, as proteins couldn’t form properly if they used both typesâjust like you couldn’t have a group of cilia beating in all different directions.Â
This gives an inherent asymmetry to amino acids, and thus to the proteins they form. And proteins themselves, once synthesized, may also fold up asymmetrically, giving another way for a bilaterally symmetric organism to have a cue for handedness.
Still, to a large extent the evolutionary and developmental basis of directional asymmetry remains mysterious, largely because the molecular underpinnings of development are mysterious and hard to study.
One question that occupied me when I was younger was this: if you take an organism that is, by and large, bilaterally symmetrical, like Drosophila (though there is a bit of handedness in a couple of its traits), could you impose artificial selection on it to produce handedness? That is, could you select for a line of flies whose right eyes were bigger than their left, or who had more bristles on their left side than on their right (and vice versa in both cases)? How hard would that be? Given the absence of marked bilateral asymmetries in species like Drosophila that could act as developmental cues for the successful selection of directional asymmetry, you might think it would be hardâeven though virtually every other trait in Drosophila can be successfully changed by artificial selection. Tomorrow we’ll learn the answer to my question.
Last night, on the floor of the Senate, Elizabeth Warren was reading a letter from Coretta Scott King that, she said, was relevant to the nomination of Jeff Sessions to be Attorney General.  King’s letter, detailing Jeff Session’s actions against black voters when he was the U.S. Attorney for Alabama, was written to Strom Thurmond and the Judiciary Committee in 1986, when Sessions was nominated for a federal district court judgeship. This was part of Warren’s objection to Jeff Sessions’ nomination to be a federal court justice, and the letter was admitted to the record in 1986. And indeed, the Republican-controlled Senate refused to confirm Sessions then; I suspect the letter from King played a role in that. Now, however, simply reading the letter was considered as Warren herself impugning another Senator. (See the letter below.) That was interpreted by Mitch McConnell as violating Senate rules.
She was ordered to sit down, something that almost never happens in the Senate. As CNN reported in an email:
McConnell determined the Massachusetts Democrat had violated a Senate rule against impugning another senator. The ruling means Warren will be barred from speaking on the floor until Sessions’ debate ends, McConnell’s office confirmed.
“She was warned. She was given an explanation. Nevertheless, she persisted,” McConnell said on the Senate floor.
The emotional exchange occurred during debate on the nomination of Sessions to be attorney general. Warren was reading from a 1986 letter from Coretta Scott King, the widow of Dr. Martin Luther King, which was critical of Sessions, then a nominee to be a federal judge.
I don’t think Warren was out of line. Yes, Sessions is another Senator, but Warren is speaking of his record, not simply denigrating him as one Senator to another. And if the letter was admitted in 1986, why not now?
Here’s the exchange: Ignore the Trumpite who introduces the video, and start watching at 0:36.
CNN further reports:
You stated that a sitting senator is a disgrace to the Department of Justice,” said Daines, explaining what Warren had done to violate the rule.
About 20 minutes later, with Warren continuing to speak out critically of Sessions,
McConnell went to the floor and told Warren she was in violation of the rule. At that point, Warren asked for a roll call vote on her appeal of the decision but it was defeated.
Warren is now barred from speaking on the floor for the remainder of the debate on Session’s nomination, McConnell’s office said. The debate is expected to wrap up about 7 p.m. ET Wednesday when a final confirmation vote is planned.
She later read King’s letter outside the Senate floor on Facebook.
The new Jesus and Mo strip, “limb2” is actually recycled from a decade ago, and refers to a website familiar to many of us (see below):
From the email:
This oneâs ten years old. The only difference is Mo speaking a little bit of French (I donât know why I think thatâs funny), and the flip-take pigeon at the end.
I know, weâre early. Normal service will resume next week.
(Comic inspired by an old website which hasnât been updated in a while)
I’ll add one bit from p. 117 of Faith Versus Fact; I was quite proud of having tracked down the Anatole France quote:
More convincing forms of healing [compared to the usual medical “miracles”] are simply never seen. Anatole France brought this up in his book Le Jardin dâĂpicure:
“When I was at Lourdes in August, I visited the grotto where innumerable crutches had been put on display as a sign of miraculous healing. My companion pointed out these trophies of illness and whispered in my ear: âOne single wooden leg would have been much more convincing.â
“That seems sensible, but, philosophically speaking, the wooden leg has no more value than a crutch. If an observer with true scientific spirit witnessed the regrowing of a manâs severed leg after immersion in a sacred pool or the like, he would not say ‘VoilĂ âa miracle!’ Rather, he would say, ‘A single observation like this would lead us to believe only that circumstances we donât fully understand could regrow the leg tissues of a humanâjust like they regrow the claws of lobsters or the tails of lizards, but much faster.'” Â [JAC translation]
Here France rejects the supernatural in favor of natural laws that we havenât yet discovered. Such healings, for example, could be the work of altruistic space aliens with advanced abilities to regrow tissue. But it doesnât matter. If we consider the regeneration of limbs or eyes not as absolute evidence for God, butâas a scientist wouldâprovisional evidence, then it points us toward the divine. And if these miracles occur repeatedly, are documented carefully, and occur only under religious circumstances, then the evidence for a supernatural power grows stronger.
Reader Kevin, who tells me that he sometimes posts under the name “LittleBoyBrew” (he brews fine ales), sent some pictures of Aussie animals, and several of his cat. His notes are indented:
You have mentioned the need to keep pictures coming. I humbly submit my own.
Last June my wife and son and I traveled to Australia, a wonderful trip. We spent a few days in Tasmania, and we visited the Bonorong Wildlife Center outside of Hobart. They have a variety of indigenous Australian animals, and in particular they have been raising Tasmanian Devils (Sarcophilus harrisii) to maintain the population until the face cancer problem can be hopefully solved.
In addition to the Devils, I am sending photos of Eastern Rosella parrots (Platycercus eximius), a Wombat, a Tawny Frogmouth (Podargus strigoides), and Randall the Echidna, all taken at Bonorong. Randall is a particularly sad/happy story, as he was mauled by a dog and had to have one front leg amputated. As such, he must remain at Bonorong. But he was so cute.
The other odd photo I took while driving the Great Ocean Road outside of Melbourne. Have you ever been there? Absolutely spectacular. Anyway, I think I caught some cormorants on the rocks. Sounds like a drink, no?
There are several of Simba, our funny black cat who is now about 14 years old. He is almost 100% black, and he is very difficult to take good pictures of, as every single photon of light seems to become entangled in his jet black fur. I sent one photo of him and his tail, a weapon he will yield to ‘accidentally’ knock items off the coffee table when he is ready to be fed for the night. “Did I knock that glass of beer from the table? Certainly not, it was this tail that follows me around which must be blamed…”. Here’s Simba in his box:
Good morning! It’s Hump Day: Wednesday, February 8, 2017, and that means that it’s both National Molasses Bar Day (I have no idea what that is, unless it’s a dive where you can get a glass of bourbon and molasses) and National Potato Loverâs Day. I’ll take the spuds. In India it’s Propose Dayâthe second day on Valentine’s week, and on which you’re supposed to give roses to your intended as a way of proposing marriage. (Or so Wikipedia implies: the real language is “On this day large number of youngsters give roses to propose their girlfriend, boyfriend, relative and friend.”  Relative?)
On this day in 1587, Mary, Queen of Scots, was executed at the age of 44 on suspicion of having plotted to murder her cousin, Queen Elizabeth I. And it’s a big day for me, for on February 8, 1693, The College of William and Mary, my alma mater, was chartered by William III and Mary II, making it the second oldest college in America, after Harvard (my other alma mater). In 1915, D. W. Griffith’s film “Birth of a Nation” opened in Los Angeles, and, in 1952, Elizabeth II was proclaimed Queen of the United Kingdom.
Notables born on this day include Jules Verne (1828), Martin Buber (1878), Lana Turner (1921), Neal Cassady (1926, â„), James Dean (1931), and Brooke Adams (1949). Those who died on this day include Peter the Great (1725), Del Shannon (1990), and Iris Murdoch (1999). Meanwhile in Dobrzyn, Hili is making not-too-veiled hints about getting fed:
Hili: I’m full of expectations.
A: What for?
Hili: For what you should do now.
In Polish:
Hili: Jestem peĆna oczekiwania.
Ja: Na co?
Hili: Na to co powinieneĆ teraz zrobiÄ.
And way out in the wilds of Winnipeg, Gus was sleeping in the sun yesterday:
I predict that the appeals court that this evening is pondering Trump’s immigration order will continue the stay, so that the order will not be enforced.
This stunning machine was invented and produced by Martin Molin, a Swedish vibraphone player. It’s fricking stupendous: a tour de force of imagination, technology, and mesmerizing sound.
Makery describes its inception (excerpts from the article are indented):
The good thing about Sweden in winter is that the sun sets earlyâwhich gives you plenty of time to lock yourself in the garage and do whatever you want. This is exactly what Wintergatan band member Martin Molin did for 16 months in order to build his musical sculpture.
âAt the time, I was a perfectionist about music. I had 2,000 demos on my computer, but I couldnât finish them. I had built up resistance,â he recalls during our meeting at Music Tech Fest in Berlin. Building his machine motivated him. âWhen you solve a problem, the more complex it is, the more fun it is.â
The result was a programmable lead marble machine measuring 2 meters high, with a complex and well-oiled mechanism. The sound engineering was just as refined, with microphones recording each individual instrument for a super slick production. The process is based on gears that rotate a wheel, which releases marbles (a total of 2,000), which play different notes as they fall on various instruments (drum and snare with a coaster and rice, bass, vibraphone, etc). Or 22 songs that can be played using a complicated formula that he explains in a video.
Watch this thing!
Martin Molinâs Marble Machine is not the first of its kind. On the Internet, itâs a sort of subculture, kind of like perpetual motion machines. One of the most popular inventors (after Martin Molin and his 21 million views) is Matthias Wandel, the same engineer who inspired the musician [JAC: see one of his machines here]. âHe plays with gravity, marbles fall with a chaotic and magnificent sound,â Molin swoons. âI wanted to see if I could do it,â he says, before admitting that he was âa bit naĂŻve⊠I thought it would be easier than that.â
And here are two videos explaining how Molin’s machine works. It’s extremely complicated, and I have nothing but admiration for this guy’s skillsâand ambition.
The first time, it was an improvisation. Now I know what the problems are and what didnât work,â reflects Molin. Because behind the magic of video editing, the Marble Machine doesnât quite work as well as its creator had hoped. âIt took several takes to get that result on video⊠I used rubber bands. When they dry out, they stop working.â In perfect conditions, the machine âworks at 95%â. But if he wants to tour with it, V2 âmust work in the worst conditions⊠That will be more of an engineering job.â
Once the festival season is over (the group is currently on tour in Sweden and Germany until at least November), Martin Molin will present the machineâs major problems that need solving to makers on YouTube in the hopes that they will offer some help: âI hope that people will suggest a solution and Iâll have a facepalm moment.â Meanwhile, itâs an open source project made on YouTube in which everyone is invited to participate. Stay connected.