Scientists Created Bacteria With a Synthetic Genome. Is This Artificial Life?

Carl Zimmer in The New York Times:’

Scientists have created a living organism whose DNA is entirely human-made — perhaps a new form of life, experts said, and a milestone in the field of synthetic biology. Researchers at the Medical Research Council Laboratory of Molecular Biology in Britain reported on Wednesday that they had rewritten the DNA of the bacteria Escherichia coli, fashioning a synthetic genome four times larger and far more complex than any previously created. The bacteria are alive, though unusually shaped and reproducing slowly. But their cells operate according to a new set of biological rules, producing familiar proteins with a reconstructed genetic code. The achievement one day may lead to organisms that produce novel medicines or other valuable molecules, as living factories. These synthetic bacteria also may offer clues as to how the genetic code arose in the early history of life.

Each gene in a living genome is detailed in an alphabet of four bases, molecules called adenine, thymine, guanine and cytosine (often described only by their first letters: A, T, G, C). A gene may be made of thousands of bases. Genes direct cells to choose among 20 amino acids, the building blocks of proteins, the workhorses of every cell. Proteins carry out a vast number of jobs in the body, from ferrying oxygen in the blood to generating force in our muscles. Nine years ago, researchers built a synthetic genome that was one million base pairs long. The new E. coli genome, reported in the journal Nature, is four million base pairs long and had to be constructed with entirely new methods.

More here.

Tuesday Poem

Under a Certain Little Star

My apologies to chance for calling it necessity.
My apologies to necessity in case I’m mistaken.
May happiness not be angry if I take it for my own.
May the dead forgive me that their memory’s but a flicker.
My apologies to time for the multiplicity of the world overlooked
each second.
My apologies to an old love for treating the new one as the first.
Forgive me far-off wars for taking my flowers home.
Forgive me open wounds for pricking my finger.
My apologies for the minuet record, to those calling out from the
abyss.
My apologies to those in railway stations for sleeping comfortably
at five in the morning.
Pardon me hounded hope for laughing sometimes.
Pardon me deserts for not rushing in with a spoonful of water.
And you O hawk, the same bird for years in the same cage,
forever still and staring at the same spot,
absolve me even if you happened to be stuffed.
My apologies to the tree felled for four table legs.
My apologies to large questions for small answers.
Truth, do not pay me too much attention.
Solemnity, be magnanimous to me.
Endure, O mystery of being that I might pull threads from your
veil.

Soul, don’t blame me that I’ve got you so seldom.
My apologies to everything that I can’t be everywhere.
My apologies to all for not knowing how to be every man and
woman.
I know that as long as I live nothing can excuse me,
because I myself am my own obstacle.
Do not hold it against me, O speech, that I borrow weighty words,
and then labor to make them light.

by Wislawa Szymborska,
translated by Joanna Trzeciak

Sunday, May 19, 2019

An American Pilot, a Muslim Teenager and a Talking Dog All Caught in an Absurd War

Karan Mahajan in the New York Times:

The wars in Afghanistan and Iraq have gone on so long that the Middle East war novel has itself become a crusty genre — a familiar set of echoes coming back to us from ravaged lands. Many of these books are stirring on the level of detail but an equal number thoughtlessly valorize the American soldier or wallow in the morally vacuous conclusion that war is hell and that’s that. Where is the ferocious “Catch-22” of these benighted conflicts? Who will have the temerity to make these wars the subject of bracing comedy?

Mohammed Hanif, who at 54 is among the most revered Pakistani novelists of his generation, comes with an obvious pedigree to pull off such a stunt. A celebrated satirist and former air force fighter pilot, he has been profiled by Dexter Filkins in The New Yorker and is reliably one of the subcontinent’s most contrarian and provocative voices. One pores over his Op-Eds in The New York Times savoring his insouciant bons mots, which encompass everything from India-Pakistan warmongering (“Schoolyard brawls have a more nuanced buildup”) to yoga instructors (“Drill sergeants trapped in poets’ bodies”). His greatest strength, though, in writing about an American war might be that he is not American. He is less likely to soften his work with patriotic (or even anti-patriotic) pieties that put America — as opposed to its victims — dead center.

More here.

Jared Diamond: There’s a 49 Percent Chance the World As We Know It Will End by 2050

David Wallace-Wells in New York Magazine:

Jared Diamond’s new book, Upheaval, addresses itself to a world very obviously in crisis, and tries to lift some lessons for what do about it from the distant past. In that way, it’s not so different from all the other books that have made the UCLA geographer a sort of don of “big think” history and a perennial favorite of people like Steven Pinker and Bill Gates.

Diamond’s life as a public intellectual began with his 1991 book The Third Chimpanzee, a work of evolutionary psychology, but really took off with Guns, Germs, and Steel, published in 1997, which offered a three-word explanation for the rise of the West to the status of global empire in the modern era — and, even published right at the “end of history,” got no little flak from critics who saw in it both geographic determinism and what they might today call a whiff of Western supremacy. In 2005, he published Collapse, a series of case studies about what made ancient civilizations fall into disarray in the face of environmental challenges — a doorstopper that has become a kind of touchstone work for understanding the crisis of climate change today. In The World Until Yesterday, published in 2012, he asked what we can learn from traditional societies; and in his new book, he asks what we can learn from ones more like our own that have faced upheaval but nevertheless endured.

More here.

Finland is winning the war on fake news and what it’s learned may be crucial to Western democracy

Eliza Mackintosh at CNN:

On a recent afternoon in Helsinki, a group of students gathered to hear a lecture on a subject that is far from a staple in most community college curriculums.

Standing in front of the classroom at Espoo Adult Education Centre, Jussi Toivanen worked his way through his PowerPoint presentation. A slide titled “Have you been hit by the Russian troll army?” included a checklist of methods used to deceive readers on social media: image and video manipulations, half-truths, intimidation and false profiles.

Another slide, featuring a diagram of a Twitter profile page, explained how to identify bots: look for stock photos, assess the volume of posts per day, check for inconsistent translations and a lack of personal information.

The lesson wrapped with a popular “deepfake” — highly realistic manipulated video or audio — of Barack Obama to highlight the challenges of the information war ahead.

The course is part of an anti-fake news initiative launched by Finland’s government in 2014 – two years before Russia meddled in the US elections – aimed at teaching residents, students, journalists and politicians how to counter false information designed to sow division.

More here.

Beyond the Crusades

Muneeza Shamsie in Newsweek Pakistan:

This January, Hussein Fancy, an American academic of Pakistani origin, received the Herbert Baxter Adams Prize, awarded annually by the American Historical Association “to honor a distinguished book published in English in the field of European history,” for his groundbreaking work The Mercenary Mediterranean: Sovereignty, Religion, and Violence in the Medieval Crown of Aragon. This isn’t the first prize awarded to this book: it had earlier been the recipient of the Jans F. Verbruggen Prize from De Re Militari for the best book in medieval military history and the L. Carl Brown AIMS Book Prize in North African Studies. These three very different prizes, each with different parameters, indicate the range and importance of Fancy’s research.

Through his exploration of the relationship between the Christian kings of Aragon in medieval Spain and their privileged, deeply religious Muslim soldiers, the jenets in the 13th and 14th centuries, Fancy sheds new light into “the interactions between Muslims and Christians in the Middle Ages” in a bid to “rethink the study of religion more broadly.” He questions the view of modern scholars that these Muslim-Christian alliances were essentially political and secular. He concludes instead that the Muslim jenetswere deeply religious. They were originally Berbers from North Africa where they were known as al Ghuzah al Mujahid and their collaboration with the Christian kings of Aragon “was neither opposed to something called religion, nor reducible to it.”

More here.

‘Dutch Girl’ shows Audrey Hepburn’s wartime courage

Terry Hartle in The Christian Science Monitor:

Audrey Hepburn was one of the most celebrated actresses of the 20th century and a winner of Academy, Tony, Grammy, and Emmy awards. She was a style icon and, in later life, a tireless humanitarian who worked to improve conditions for children in some of the poorest communities in Africa and Asia as an ambassador for UNICEF. But this extraordinary individual was the product of an extremely difficult childhood. Her father was a British subject and something of a rake and her mother was a minor Dutch noblewoman. Both of her parents flirted with the Nazis in the 1930s. Her mother met Adolf Hitler and wrote favorable articles about him for the British Union of Fascists. After abandoning the family in 1935, her father moved to England and became so active with Oswald Mosley’s fascists that he was interned during World War II. As a child, Hepburn rarely saw him.

Hepburn was shipped off to a small boarding school in England where she fell in love with the world of dance. With the outbreak of the war, her mother brought her back to the Netherlands. There, she became a reluctant observer of the brutal Nazi occupation of Western Europe from 1940 to 1945. Her early life is the subject of Robert Matzen’s latest book, Dutch Girl: Audrey Hepburn and World War II. This is the third book that Matzen has devoted to leading figures of Hollywood’s Golden Age during the war years. As with his earlier volumes, “Mission: Jimmy Stewart and the Fight for Europe” and “Fireball: Carole Lombard and the Mystery of Flight 3,” this book dives deep into a corner of his subject’s life that gets little attention from most biographers. Matzen believes that what Hepburn, Stewart, and Lombard did during the war is interesting in its own right, and that their experiences fundamentally shaped their lives and provide insights into their characters.

More here.

Sunday Poem

Once by the Pacific

The shattered water made a misty din.
Great waves looked over others coming in,
And thought of doing something to the shore
That water never did to land before.
The clouds were low and hairy in the skies,
Like locks blown forward in the gleam of eyes.
You could not tell, and yet it looked as if
The shore was lucky in being backed by cliff,
The cliff in being backed by continent;
It looked as if a night of dark intent
Was coming, and not only a night, an age.
Someone had better be prepared for rage.
There would be more than ocean-water broken
Before God’s last Put out the Light was spoken.
.
by Robert Frost

She-Merchants, Buccaneers & Gentlewomen – the women of the Raj

Maya Jasnoff in The Guardian:

It’s a well-known saying that women lost us the empire,” the film director David Lean said in 1985. “It’s true.” He’d just released his acclaimed adaptation of A Passage to India, EM Forster’s novel in which a British woman’s accusation of sexual assault compromises a friendship between British and Indian men. Misogyny may not be the first prejudice associated with British imperialists, but it has proved as enduring as it was powerful. As Katie Hickman discovered when she started writing about British women in India, Lean’s view (if not Forster’s) “remains stubbornly embedded in our consciousness”. “Everyone” she talked to “knew that if it were not for the snobbery and racial prejudice of the memsahibs there would, somehow, have been far greater harmony and accord between the races”. Her book, vivaciously written and richly descriptive, offers a rebuke to such stereotypes. She animates a cast of British women who travelled to India before the 1857 rebellion. They included “bakers, dressmakers, actresses, portrait painters, maids, shopkeepers, governesses, teachers, boarding house proprietors … missionaries, doctors, geologists, plant-collectors, writers … even traders” – and some of them might not have been out of place in a Lean epic of their own.

…A clue as to how strange the Englishwomen may have appeared in turn comes from the 1838 diary of Fanny Eden (sister of the governor-general Lord Auckland), who on concluding a visit to one zenana was startled when her hostesses “took a fit of fun and instead of quietly pouring attar of roses over our hands” – as was conventional – “took to smearing our gowns all over with it, laughing vehemently at the utter ruin they were perpetrating”.

More here.

Saturday, May 18, 2019

What the Ancient Greeks teach us

Emily Wilson in The New Statesman:

Simon Critchley’s latest book ends with an anecdote about a public conversation he had with the actor Isabelle Huppert. “Of course, what theatre is about is aliveness, a certain experience of aliveness,” she told him. “That’s all that matters. The rest is just ideas.” The remark left him “internally stopped” at the insight that theatre is indeed an “experience of sensory and cognitive intensity” that is “impossible to express purely in concepts”. The story explains the genesis of Critchley’s book: it articulates a struggle by a person trained as a philosopher, dedicated to the study of concepts, to explain his fascination with theatre in general, and ancient Athenian tragedy in particular.

Critchley has a longstanding interest in the relationship of literature and philosophy: as an undergraduate at the University of Essex, he began a degree in the former before switching to the latter. A philosopher of an eclectic kind, he is interested in continental thinkers such as Heidegger and Levinas, but has also published on football, suicide, subjectivity, David Bowie, Wallace Stevens and humour. Critchley’s central goal in his new book is to suggest a way of doing philosophy that acknowledges and somehow participates in the “aliveness” of theatre. At the same time, he offers a vibrant introductory ramble through Athenian tragedy and its reception in Plato and Aristotle.

More here.

Is This Really How it Ends?

Jan-Werner Müller in The Nation:

Of all the books that this new democracy-defense industry has produced, Steven Levitsky and Daniel Ziblatt’s How Democracies Die makes the most coherent case, by way of comparison, for why Trump’s presidency may well endanger one of the world’s oldest republics. As scholars who have worked primarily on Latin America and Europe, Levitsky and Ziblatt demonstrate how a global perspective should shake many people out of the complacency created by their cherished beliefs about American exceptionalism. Like all students of comparative politics, they are mindful that 1990s Venezuela, post-1945 West Germany, and interwar Belgium—all of which make an appearance in their book—differ profoundly. And yet they think one lesson can be generalized: that democracies depend not just on institutions like courts committed to protecting the rule of law; they also require informal norms that all political players need to observe to keep the democratic game going. Like many liberals, they think that serious norm violators such as Trump should be kept out of the game entirely, and so they call for reinforcing the power of elite gatekeepers as a powerful line of defense.

In his similarly titled How Democracy Ends, David Runciman, the most original theorist of democracy writing in the United Kingdom today, provides a convincing alternative to the products that come off the assembly line of the democracy-defense industry. The Cambridge professor is deeply wary of historical analogies. He worries that, by becoming fixated on fascism and other instances of democratic self-destruction, we will miss today’s real challenges—the catastrophe of climate change, above all, but also how social-media networks are undermining democracies in subtle yet potentially fatal ways. Democracy, Runciman says, is about keeping the future open and enabling people to change their minds after encountering different views and new information; the Internet giants, by contrast, profit from always giving us more of the same. Combine the power of algorithms with a state committed to all-out surveillance of its citizens and you get contemporary China, an authoritarian model that Runciman regards as a serious rival to democracies today.

More here.

Rachel Sherman: Living on Uneasy Street

Over at The Hedgehog & the Fox, an interview with Rachel Sherman:

New School sociologist Rachel Sherman interviewed fifty affluent residents of New York (the most unequal city in the United States) to find out their attitudes to wealth. She writes of her sample:

Most households had incomes of over $500,000 per year, assets of over $3 million, or both. About half earned over $1 million annually and/or had assets of over $8 million. The median household income of the sample was about $625,000, which is twelve times the New York City median of about $52,000. […] They worked or had worked in finance, law, real estate, advertising, academia, nonprofits, the arts, and fashion.

What she discovered in her interviews is presented in her recent book, Uneasy Street, which is full of fascinating insights into what she calls “the anxieties of affluence”, the ongoing struggles her informants experience over how to combine being wealthy with feeling they possess moral worth. This often leads them to emphasize who they are as opposed to what they have. They also repeatedly highlight virtues normally associated with the middle class: hard work, modest consumption, a commitment to ensuring their children embrace similar attitudes. Sherman writes:

They want to be in the middle, not in a distributional sense but rather in the affective sense of having the habits and desires of the middle class. As long as the wealthy can distance themselves from images of ‘bad’ rich people, their entitlement is acceptable. In fact, it is almost as if they are not rich.”

More here.

 

The new kilogram debuts Monday. It’s a massive achievement

Brian Resnick in Vox:

Starting Monday, the kilogram will be defined by the Planck constant.

The Planck constant is a concept in quantum mechanics (i.e. the study of how the tiniest components of the universe works), which describes how the tiniest bits of matter release energy in discrete steps or chunks (called quanta). Basically, you can think of the Planck constant as the smallest action an electron can take.

What’s important about the Planck constant is that it can never, ever change. And that makes it a worthy concept to anchor the definition of the kilogram to.

But first, to appreciate why the Planck constant can define the kilogram, it’s helpful to look at how the meter — the world’s standard unit of length — was redefined in terms of the speed of light as an example of why this was necessary.

The meter was originally defined as the length of a bar at the International Bureau of Weights and Measures in France. (It was then redefined to be equal to a certain wavelength of radiation.) Again, the problem with this definition was its imprecision. It was not based on unchanging properties of the universe.

Light speed, on the other hand, is unchanging. By 1983, physicists had gotten really good at measuring the speed of light. So they used it to fix the length of the meter forever, to make it permanent.

Here’s how: They redefined the meter to be equal to the distance light travels in a vacuum in 1/299,792,458 of a second. Essentially, the definition of the meter is now baked into the definition of the speed of light.

So let’s get back to the Planck constant.

To understand, let’s take a look at it. Written out, the Planck constant is 6.62607015 × 10-34 m2kg/s.

More here.

Like ‘Groundhog Day’ in Hell, ‘Lent’ Traces the Recurring Lives of a Heretic Monk

Cory Doctorow at the LA Times:

“Lent” opens with a beautifully rendered retelling of the life of Savonarola: his visions of demons, his prophecy, his political meddling and his role in vast historical forces tearing apart Italy and France. We meet a cast of characters, each with the ringing verisimilitude of well-researched, real historical personages from the heretical Count Giovanni Pico della Mirandola to the statesman Lorenzo de’ Medici and various clergy, peasants, nuns and friars of feuding orders. Finally, we come to the martyrdom of Savonarola, hanged over a roaring flame, then cut down to fall into the blaze …

… And then to wake again, in hell, where Savonarola remembers — again, after an unknowable number of previous iterations — that he is a demon, a fallen angel, a duke of hell, cast out of God’s light. In an instant, his whole earthly existence is invalidated: his life as a mystic and prophet, a caster out of demons, a scourger of wickedness, all irrelevant. He has lost the grace he once had and is condemned to repeat his life as Savonarola over and over, tortured in between by endless and instantaneous sojourns in hell, where all grace is denied.

more here.

Revenge of the She-Punks

Laura Snapes at The Guardian:

The hoary old legends of rock journalism are seldom those who deserve a place in history. If pioneers such as Ellen Willis and Caroline Coon got half the glory of verbose stylists like Nick Kent and Lester Bangs, modern music criticism would be in healthier shape. Vivien Goldman lives among these overlooked heroes of the inkies era. From the mid-70s, she became Bob Marley’s first UK publicist, critic, musician, music video director and musical writer among other gigs (including occasional writing for the Guardian). Her work for NMEMelody Maker and Sounds in the 1970s and 80s offered sparkling and righteous reportage from a figure who lived cheek-to-cheek with London’s punk and reggae stars and never strayed from her ethos.

This book should restore Goldman’s place in the rock-crit firmament just as she sets out to give punk’s women their long-denied dues. It only takes a glance at the covers of heritage rock mags and bookshop music sections to see how punk – a supposedly egalitarian, no-heroes movement – has made second-class citizens of its most vital agitators: women. “Revenge,” Goldman writes, “means getting the same access as your male peers.”

more here.

The World According to John Waters

Alan Cumming at The NY Times:

That John Waters is a national treasure is a surety. Period. Thank you and good night.

The studies of American film history from the mid-60s onward, and of countercultural ideas and ideals from then up to the very present moment, are infused and imbued with and by his great, weirdo, contrary specter.

His latest book is cleverly entitled “Mr. Know-It-All.” Clever because, duh, the guy is in his 70s, he has done it all, he is as cool as anyone could ever hope to be and he is still rocking: touring with his speeches and books and art shows and generally imparting his pervy yet utterly sensible (mostly) wisdom to generations of people who were not even born when he first shot to fame like some indie, scatological P. T. Barnum who captured on film the indelible cultural phenomenon of an overweight drag queen on the streets of Baltimore eating actual dog feces.

more here.