Happy 100th birthday, Francis Crick (1916-2004)

June 8, 2016 • 10:15 am

by Matthew Cobb

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Francis Crick, co-discoverer of the double helix structure of DNA with Jim Watson, was born 100 years ago today, on 8 June 1916. He was one of the most remarkable scientists of the 20th century, and, in my opinion, had one of the greatest scientific minds ever. As Jerry put it here a while back, ‘Crick was a fricking genius!’

A few weeks ago, on 16 May, Cold Spring Harbor Laboratory (CSHL) on Long Island organised a day-long symposium, ‘Celebrating Francis,’ in which a range of speakers outlined the key phases of his life. As well as historians and colleagues, the speakers included Jim Watson, Michael Crick (Francis’s son) and Kendra Crick (his grand-daughter). I was lucky enough to be invited to speak by the CSHL organisers – Alex Gann, Mila Pollock and Jan Witkowski (my sincere thanks to all of them). The audience included veteran figures of molecular biology such as Mark Ptashne, Matt Meselson and Don Caspar. Sadly absent was Crick’s long-time collaborator, Sydney Brenner, who could not travel due to ill-health.

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The audience in Nichols Biondi Hall at CHSL

The evening before the meeting, there was a celebratory concert in the Grace Auditorium at CSHL, given by the virtuoso young pianist Charlie Albright, who in some ways is Jim Watson’s protégé. The programme included Chopin and Liszt, and a feature of Albright’s concerts – an improvisation on a set of notes chosen by the audience.

Afterwards there was an excellent banquet, at which all the guests were presented with a rather bizarre Crick bobblehead as a souvenir…

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Michael Crick with his Francis Crick bobblehead

 

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A close-up of the Crick bobblehead box. He is not holding a magic wand, but a slide-rule, which in the famous picture of the double helix model, he is using to point at the structure.

And so to bed.

Jetlagged, I awoke before dawn, and wandered down Bungtown Road towards the sand spit which protects Cold Spring Harbor from the worst of the weather. There was an astonishing dawn chorus of birds, the impact of which was slightly lessened by the fact that I could not identify a single one.

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On the sandspit I found traces of un raton laveur

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After breakfast, the meeting began. The opening speech was given by Jim Watson, who spoke in moving terms about his friendship with Crick, and the immediate impression the older Englishman made on the young Watson, who was only 23 when they first met in 1951. There was a gleam in his eye, and you could glimpse what Watson must have been like all those years ago – brilliant, obsessive and incredibly annoying to anyone who did not share his obsessions.

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Watson talking about Crick. Quiz: what well-known photo is he speaking in front of?

This was followed by two presentations dealing with Crick’s early life and career, by his two biographers – Matt Ridley (author of Francis Crick: Discoverer of the Genetic Code (2006) – an excellent brief account of Crick’s life—and Robert Olby, whose Francis Crick: Hunter of Life’s Secrets (2009) remains the definitive account.

Ridley’s humorous and insightful scene-setting included a nice connection between Crick’s grandfathers and Charles Darwin (Darwin was sent a specimen by Crick’s grandfather, which he wrote up in his final paper, without giving credit where credit was due…). He also took time to rightly swipe at the story, regularly repeated, that Crick was high on LSD when he realised that DNA was a double helix. Whatever Crick may or may not have done later, understanding the structure of DNA involved some complex mathematics that would be highly soluble in a psychedelic. Ridley also recounted Crick’s opposition to the inauguration of a Christian chapel at Churchill College Cambridge, where he was a fellow, which involved an exchange of letters – and cheques – with Sir Winston Churchill.

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Matt Ridley speaking, with Robert Olby on the right, taking notes.

Olby’s presentation focused on Crick’s war-time work with the Admiralty, where he used his mathematical and physical insights to develop complex procedures for exploding enemy mines. Even in his war work, Crick’s mental agility, and his humour, came out. On the other hand, he was clearly a handful for those who were charged with trying to corral him into focusing on the task at hand.

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Robert Olby speaking about Crick’s war-time work.

 

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Crick’s grand-daughter, Kindra, asks a question. To her right, Jim Watson. On the wall behind you can see an excellent display of Crick’s life and work.

After the coffee break, Steve Harrison presented what was probably the decisive development in Crick’s intellectual outlook, as he turned his mathematical skills to the study of molecular structure, in particular the importance of helices. It was through his PhD work on this topic that Crick was able to come up with the correct interpretation of the structural data that was obtained by Rosalind Franklin and her (and Maurice Wilkins’) PhD student, Ray Gosling. Crick could see what Franklin could not, because he had been thinking about helices for several years. As Pasteur put it, fortune favours the prepared mind.

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Steve Harrison speaking about Crick and helices

Watson’s own description of the discovery of the structure of DNA did not contain any striking new revelations, with one exception. He finally admitted that when he wrote in The Double Helix that Crick strode into the Eagle pub and proclaimed ‘We have discovered the secret of life’, this was not true. Watson said he made it up, for dramatic effect. Crick always denied saying any such thing, and historians have long known that The Double Helix cannot be taken as an entirely reliable source.

Watson spent some time talking about Rosalind Franklin, who is now so often the focus of speculation and argument about who should get credit for the discovery of the structure of DNA, driven partly by Watson’s own searingly honest account in the pages of The Double Helix of his bad behaviour towards her. His view at the meeting was entirely in keeping with his more mature, reflective account, to be found at the end of The Double Helix, but which many of his critics do not appear to have read. For those of you who want to know more – no, Watson and Crick did not steal Franklin’s data. You can read my account here. In his speech before the Charlie Albright concert, Watson had said, rightly, that in another Universe, we would not talk about the Watson-Crick structure of DNA, but instead of the Franklin- Wilkins structure.

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Jim Watson speaking about Rosalind Franklin, in front of a photo of her on holiday in Tuscany, in 1950.

The final talk before lunch came from Crick’s son, Michael. In March 1953, at the age of 11, Michael became the first person outside of the immediate scientific circle of Watson and Crick to know about the double helix structure, when Crick sent him a letter, which was recently sold at auction for $6 million. Michael explained that he had recently understood that the letter was not in fact written for him, but rather for posterity (hence the numbered pages, claimed Michael), and that it was sent to him in response to the fact that, a few months earlier, he had baffled (and annoyed) his father by creating a code that had been unbreakable (Michael refused to divulge what the code was, as he had taken an oath, aged 11, never to do so…).

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Michael Crick speaking about receiving the letter from his father in March 1953.
Letter from Francis Crick to his son, Michael.
Francis Crick’s letter to his son, Michael.

After lunch I spoke about the genetic code, and Crick’s role in coming up with the key phrase in Watson and Crick’s second Nature paper, which appeared six weeks after the first – ‘the precise sequence of the bases is the code which carries the genetical information’ (Watson did not demur from my suggestion). I concentrated on what happened after this decisive moment, as scientists from around the world tried to crack the code using a variety of means, culminating in Nirenberg and Matthaei’s 1961 off-the-wall experimental approach.

Over lunch, Matt Meselson told me that he heard Nirenberg’s small talk at the August 1961 Moscow Biochemical Congress quite by accident – he was passing the room and went in on the off-chance, along with a dozen other people. Meselson’s version of how he came to hear Nirenberg’s breakthrough was a significant addition – as is well known, overwhelmed with excitement he dashed to find Crick, who was chairing a plenary session the next day and told him the news. Crick, despite being scooped, immediately changed the programme and generously invited Nirenberg to give his talk again, this time to hundreds of scientists, effectively launching a race to crack the whole of the genetic code, which culminated in 1966 in Cold Spring Harbor, on Crick’s 50th birthday.

After spending 20 years of his life focused on molecular structures, Crick shifted his interest to neuroscience (other researchers made similar moves – Sydney Brenner turned to development, pioneering the use of the worm C. elegans, while Seymour Benzer used Drosophila to study behaviour, something which changed my life a few years later).

This final phase of Crick’s intellectual life was described by one of my student heroes, Tomaso Poggio, who in the 1970s developed mathematical models of vision in flies, inspiring me to think about how modelling could explain the activity of simple nervous systems that produce complex behaviour.

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Tomaso Poggio opens the session on Crick’s adventures in neuroscience.

He was followed by Pat Churchland, who worked with Crick at the Salk Institute. Churchland is an unusual mix – a philosopher and a neuroscientist – and she described her daily interactions with Crick and his piercing questioning of everything. She emphasised the importance of his work with Christof Koch on consciousness in humans, which culminated in a 2003 article ‘a framework for consciousness’. Even if the detail was probably wrong, Crick’s fundamental genius lay in his ability to ask the right questions.

Pat Churchland in dynamic mode
Pat Churchland in dynamic mode.

The final two contributions were the most personal (everyone except myself had met Crick, and brought their memories into play when they spoke about him). First, Kindra Crick, his grand-daughter, spoke about how she remembered her grandfather, and what it was like being a neuroscience student with such a famous ancestor (like Odile, Crick’s second wife, she eventually became an artist).

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Kindra Crick talks about her grand-father. Behind her, a picture of her on her grand-father’s shoulders, when she was little.

Finally, Jim Watson closed the proceedings, speaking about a man who was not only a brilliant scientist, but also Watson’s friend.

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Watson and Crick

And there you have it. Crick made a massive contribution to science, not only through his work with Watson in uncovering the structure of DNA, but in realising its significance in terms of the genetic code, and in then being the intellectual driving force behind the international race to crack the code, which covered the years 1953-1967. His work on neuroscience and consciousness did not have the same success – perhaps not surprisingly, given the scale of the challenge – but showed the same piercing intelligence at work. And perhaps when, maybe, at the end of this century, we have finally resolved this most fundamental of scientific problems, Crick will again turn out to have made a decisive contribution.

The exciting “new phylum” of Dendrogramma turns out to be an old one

June 8, 2016 • 8:45 am

Time for a correction. On September 7, 2014, I put up a post about a weird new creature, Dendrogramma, two species of which were dredged up from the deep seas of Australia. Here’s one of them:

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Thse species, which had stalks and inflexible disks, weren’t considered members of existing phyla like ctenophores (comb jellies) because, as the original paper (Just et al., reference and link below) noted, they lack features present in other similar phyla (my emphasis in this original quote):

Dendrogramma shares a number of similarities in general body organisation with the two phyla, Ctenophora and Cnidaria, but cannot be placed inside any of these as they are recognised currently. We can state with considerable certainty that the organisms do not possess cnidocytes, tentacles, marginal pore openings for the radiating canals, ring canal, sense organs in the form of e.g., statocysts or the rhopalia of Scyphozoa and Cubozoa, or colloblasts, ctenes, or an apical organ as seen in Ctenophora. No cilia have been located. We have not found evidence that the specimens may represent torn-off parts of colonial Siphonophora (e.g., gastrozooids). Neither have we observed any traces of gonads, which may indicate immaturity or seasonal changes. No biological information on Dendrogramma is available.

DNA data, which would have been very useful, weren’t available for these specimens as they were collected in 1986 and fixed in formalin, which destroys DNA. While the authors didn’t name a new phylum, they suggested that these two species were indeed representatives of a new phylum, and that caused a lot of excitement. (New phyla aren’t often described.)

However, a 2015 expedition, whose results are described in a new paper in Current Biology (O’Hara et al., reference and free link below), produced RNA that could be sequenced. And that RNA shows that Dendrogramma isn’t a new phylum at all, but a siphonophore. Siphonophores are well known, an order that falls in the class Hydrozoa, itself in the phylum Cnidaria. Siphonophores are a bizarre group consisting of specialized individual animals that band together as a group to form a “superorganism”; the most familiar member is the Portuguese man of war, and here’s another, the pelagic (free swimming) siphonophore Marrus orthocanna:

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As the new paper notes:

Siphonophores are bizarre pelagic colonial cnidarians in the class Hydrozoa. They are complex elongate or spherical organisms with specialised locomotive and feeding zooids, and a net of tentacles that can be extended to catch prey or attach to the seafloor. There are 175 described species, living in a range of habitats from the sea surface (e.g., Physalia physalis, the Portuguese Man O’War) to the deep-sea. Larger, more delicate species have been found mainly in the non-turbulent mesopelagic (300–1000 m) or bathypelagic zones (1000–3000 m).

The RNA analysis places Dendrogramma (probably just one species, not two), firmly in the siphonophores: it’s the red species in the phylogny below.

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(From the paper): Dendrogramma in the tree of animal life. Dendrogramma bracts showing the (A) ‘discoides’ and (B) ‘enigmatica’ morphologies (scale bar = 10 mm). (C) Simplified phylogenomic tree of the Metazoa, predominantly derived from Whelan et al. 2015 [3], showing the position of Dendrogramma. Bootstrap values are 100% unless otherwise indicated.
Finally, the authors hypothesize that the “animal” Dendrogramma in the first picture above is really part of a more complex colony, and that the discoid things with stalks are cormidial bracts. The figure below shows those bracts in an entire siphonophore:

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Reference here.

So, move along folks, nothing more to see here. It’s just the usual advance of science, when we can better identify a bizarre form using DNA—or in this case, RNA. The earlier speculations that Dendrogramma may be a living remnant of the bizarre Ediacaran fauna that went extinct about 540 million years ago is no longer tenable.

h/t: Matthew Cobb, Casey Dunn

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REFERENCES:

Just, J., R. M. Kristensen, and J. Olesen. 2014. Dendrogramma, New Genus, with Two New Non-Bilaterian Species from the Marine Bathyal of Southeastern Australia (Animalia, Metazoa incertae sedis) – with Similarities to Some Medusoids from the Precambrian Ediacara. PLOS One DOI: 10.1371/journal.pone.0102976

O’Hara, T. D. et al. 2016. Dendrogramma is a siphonophore. Current Biol. 26: R457-458.

Jesus ‘n’ Mo ‘n’ Defamation

June 8, 2016 • 8:30 am

The new Jesus and Mo strip, called “human2”, is a wry comment on Authoritarian Leftism—an ideology that refuses to recognize the part that religion plays in Islamist brutality.
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One of those news sources that self-censors reports on Islamist brutality is the Huffington Post, whose religion page is devoted largely to coddling Islam and telling us how wonderful it is. And although PuffHo has occasionally mentioned the crimes of ISIS, it has completely neglected some not-so-wonderful news reported by many other venues:  19 Yazidi women, all of whom were taken as sex slaves by ISIS fighters (this is, of course, sanctioned by Islamic decree), refused to have sex with their captors. They were all burned alive last Thursday in cages at Mosul. If you’ve seen the video of the same fate dealt out to a captured Jordanian pilot, you’ll know what a horrible and painful death that is. (You can see the new Yazidi story at many places, including the New York Times, the Independent, and RT News.)

These women were immensely brave, for they surely knew what fate awaited them. Their story deserves to be told, but of course was completely overlooked by PuffHo in its desire to show how splendid Ramadan is. (It isn’t: it involves starving yourself, and not drinking water, for an entire month during the day, all in service to a fictitious God. It’s a more severe version of the equally ludicrous and self-abnigating season of Lent.)

Don’t forget that you can help the brave artist (who of course must remain anonymous) by becoming a patron on Patreon.

Readers’ wildlife photographs

June 8, 2016 • 7:30 am

Reader Karen Bartelt sent us some nice photos from Big Bend National Park in Texas. The notes are hers:

The blue punk rocker is a phainopepla, Phainopepla nitens – one of the silky flycatchers.  This was the bird that made the trip.  It’s considered uncommon in the park.  It was dusk, and the light was fading fast, but he held nice and still.
P1060155Phainopepla
The next one has to be a black phoebe, Sayornis nigricans.  However, most black phoebes have a lot more white below the “waist”.  I would love other suggestions; I’ve been through the Big Bend bird list.
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The next two are black-throated sparrows, Amphispiza bilineata:
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Mexican jay, Aphelocoma wollweberi:
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Greater roadrunner, Geococcyx californianus.  We saw a lot of them, but this one walked up to me as I was resting in the shade.  Not more than two feet away:
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Lastly, not a bird, but a javelina, or collared peccary, Pecari tajacu:
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Wednesday: Hili dialogue

June 8, 2016 • 6:30 am

It’s Wednesday, June 8, I’m back in Chicago for a few days, and today and happens to be the 100th birthday of Francis Crick—something we’ll celebrate later this morning with a special post by Matthew Cobb. On this day in 1949, my birth year, George Orwell published Nineteen Eighty-Four. Besides Crick, those born on this day include Frank Lloyd Wright (1867), mountaineer Jim Wickwire (1940), and fly geneticist and Nobel Laureate Eric F. Wieschaus,  (1947). Notables who died on this day include Thomas Paine (1809), Andrew Jackson (1845), Gerard Manley Hopkins (1889), mountaineers Andrew Irvine and George Mallory, lost on Mount Everest in 1924 (I believe they’ve found some of Mallory’s remains), and Negro Leagues star pitcher Satchel Paige (1982), who was too old to be great in the major leagues when they finally allowed black players in. Meanwhile in Dobrzyn, Hili’s stuck up in the cherry trees again:

Hili: It’s easy to say “glory in the highest” but how am I going to get down?
A: Probably very cautiously.
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In Polish:
Hili: Łatwo się mówi “chwała na wysokościach” ale jak ja potem stąd zejdę?
Ja: Pewnie bardzo ostrożnie.

 

Readers’ wildlife photographs

June 7, 2016 • 12:00 pm

Actually, we have a video today—from Tara Tanaka. Some of my favorite videos of hers are ones showing baby ducks plopping down into the water from high nesting boxes. In this case, it’s black-bellied whistling ducks (Dendrocygna autumnalis). You can find Tara’s main video page here.

Beginning in mid-August of 2015, I was in my tiny blind, set up with 3 cameras and tripods before sunrise for 24 days in a row. I had completely misjudged the beginning of the pair’s approximately 32-day incubation period!

This video is a bit overdue, but I was inspired to edit and share it as I’ve been going out every morning for the last two weeks waiting for the baby Whistling ducks in another box to jump. I am especially excited to see “who” jumps out of this box, as there was a Hooded Merganser and at least one Wood Duck that appeared to also lay eggs in the box, but the Whistling Ducks ended up with possession.

Last summer was hot and steamy, and I was shooting almost directly into the sun. As the sun would come up and reach the vegetation in our nearly 100% humidity, there would be a 30-minute period that a haze would almost completely obscure the entrance to the box. On the day they jumped, it started to rain just as I got all of my gear in the blind. I was disappointed that “the day” might be ruined by rain, but as it turned out, the light had never been better.

We were in a severe drought by the time this late brood hatched, and the parents had to lead the babies across the dry swamp bottom to water, but they had some good cover provided by vegetation that had grown as the swamp dried. I lost them in the brush, but hopefully they were able to get the babies to water and keep them safe. I wish they were easier to tell apart – when we had over 30 arrive in April, I wondered if any of them had hatched here last year.

Tara added that her 4K videos on Vimeo can now be viewed in 4K, not just 1080 (HD).

Marathon Man: Joe Rogan talks to Sam Harris

June 7, 2016 • 11:00 am

by Grania Spingies

In an Homeresque feat of endurance, Joe Rogan (comedian, actor, sports commentator) and Sam Harris (writer and neuroscientist, for the one accidental reader here who doesn’t already know who Sam is) sat down and talked for a mammoth 4.5 hours about cabbages and kings.

Joe Rogan hosts a podcast that covers a very wide range of guests and subjects and has spoken to Sam before on his show. I’d recommend that you download the podcast and go for a long walk. It’s long, so you may want to break it into two sessions – even Sam reached “the upper limits of bladder capacity” after a couple of hours.

Here’s the Youtube link if you want to watch the discussion.

A rough guide to the chat:

1st hour – vegetarianism, consciousness, neuroscience

2nd hour – bioethics, future technologies, super-bugs, antibiotics, disease, self-driving cars

[As a side note in case anyone from the Joe Rogan’s show ever sees this: The Daily Mail from the UK should be treated with extreme skepticism. They are less reliable than Fox News as a news source. Check everything they write about.]

3rd hour – Trump and Clinton

4th hour – boxing, martial arts, zoos, wildlife preservation, negative and positive population growth, eliminating poverty, wealth inequality, the rise of Artificial Intelligence and its implications for humanity.

It’s a fascinating meander through a range of diverse topics, well worth a listen if you have a few hours to spare.

The Gadfather mocks postmodernism

June 7, 2016 • 10:00 am

In this short (3.5-minute) video, evolutionary psychologist Gad Saad reads the abstract of a recent postmodern article on transsexuaity. (You can find the article, from the journal Studies in Gender and Sexualityhere.)

Reading these abstracts is a great exercise in showing the Emperor’s nudity, and I may do one of these myself (it’s a doozy!). I had thought that postmodernism was on the wane, but this article, and other pomo pieces equally risible, are from this year.

h/t: Gregory