Human genetic variants identified that affect COVID susceptibility and severity

Samira Asgari and Lionel A. Pousaz in Nature:

For more than a year now, scientists and clinicians have been trying to understand why some people develop severe COVID-19 whereas others barely show any symptoms. Risk factors such as age and underlying medical conditions1, and environmental factors including socio-economic determinants of health2, are known to have roles in determining disease severity. However, variations in the human genome are a less-investigated source of variability. Writing in Nature, members of the COVID-19 Host Genetics Initiative3 (www.covid19hg.org) report results of a large human genetic study of SARS-CoV-2 infection. The researchers identify 13 locations (or loci) in the human genome that affect COVID-19 susceptibility and severity.

More here.

Mark Blyth: Why does inflation worry the right so much?

Mark Blyth in The Guardian:

Thirty years ago, Albert O Hirschman published a short book that infuriated conservatives called The Rhetoric of Reaction. The book showed how conservative arguments across time and space fell into three rhetorical buckets: perversity – raising taxes means less revenue; futility – voting changes nothing; and jeopardy – if you give the vote to poor people, you get revolution (the opposite of futility, but who cares about consistency). As well as being a great summer read, Hirschman’s rhetoric continues to shed a useful light on the present conservative obsession (apart from critical race theory) with inflation.

Whenever inflation threatens, two versions of the perversity thesis are deployed. The first, usually opined by members of the investor class, argues that inflation mainly hits those on fixed incomes, older and poorer people, thereby proving their concern is born from a sense of care for society’s weakest. Oddly, that same class of folks seem utterly indifferent to older and poorer people until inflation threatens to either reduce their expected investment returns, or impact their leveraged financial strategies, as interest rates rise.

More here.

Hell is other people: a monk’s guide to office life

Catherine Nixy in 1843 Magazine:

Over the past year many of us have sat at home, confined to the same four walls for much of the day, contemplating the same view, munching the same lunch and wearing the same clothes (at least below waist level). While the key workers of the world actually kept everything running by going out to work, many of us have likened our privileged isolation to that of a monk confined in a monastery, world at bay. The word “monk” comes from a Greek word meaning “alone”, which is exactly how monks spent their earliest days, living and working anywhere from the sands of the Syrian desert to the banks of the River Nile. One particularly celebrated figure spent almost 40 years standing on a pillar in Syria until his feet exploded and his spine collapsed. (Those missing their ergonomic office chairs may sympathise.)

From the fourth century onwards, the great monkish wfh experiment fell out of fashion and monks flooded into monasteries – just as many employers hope their staff will do this summer, as life reverts to some semblance of its before-covid (bc) self.

A monastic life may sound surprisingly familiar. They put on drab work clothes each day to turn up for duty, same time, same place. They embraced the nine to five (or, to be precise, the 6am to 7pm. Tough boss). If going back to the office reminds you how annoying your colleagues are, spare a thought for the monks who had the same ones – and endured their same noxious habits – until the day they died (and, assuming they’d laid their bet in Pascal’s wager correctly, after it, too). If you hated the way your tablemate slurped his soup or sang evensong, you simply had to keep quiet and offer up your suffering to God.

Once monks gave up their flexi-work freedoms they had to find a way to get along with their brethren. Judging by the outpouring of literature spawned by this move, as soon as corporate monkish life began, brothers started to annoy each other.

More here.

How to Unlearn a Disease

Kelly Clancy in Nautilus:

My father, a neurologist, once had a patient who was tormented, in the most visceral sense, by a poem. Philip was 12 years old and a student at a prestigious boarding school in Princeton, New Jersey. One of his assignments was to recite Edgar Allan Poe’s The Raven. By the day of the presentation, he had rehearsed the poem dozens of times and could recall it with ease. But this time, as he stood before his classmates, something strange happened. Each time he delivered the poem’s famous haunting refrain—“Quoth the Raven ‘Nevermore’ ”—the right side of his mouth quivered. The tremor intensified until, about halfway through the recitation, he fell to the floor in convulsions, having lost all control of his body, including bladder and bowels, in front of an audience of merciless adolescents. His first seizure.

When my father heard this story, he decided to try an experiment. During Philip’s initial visit, he handed the boy a copy of The Raven and asked him to read it aloud. Again, at each utterance of the raven’s gloomy prophecy, Philip stuttered. His teeth clenched and his lips pulled sideward as though he were disagreeing with something that had been said. My father took the poem away before Philip had a full-blown fit. He wrote a note to the boy’s teacher excusing him from ever having to recite another piece of writing. His brain, my father explained, had begun to associate certain language patterns with the onset of a seizure.

The power of the nervous system lies in this ability to learn, even through adulthood. Networks of neurons discover new relationships through the timing of electrochemical impulses called spikes, which neurons use to communicate with one another. This temporal pattern strengthens or weakens connections between cells, constituting the physical substrate of a memory. Most of the time, the upshot is beneficial. The ability to associate causes with effects—encroaching shadows with dive-bombing falcons, cacti with hidden water sources—gives organisms a leg up on predators and competitors.

But sometimes neurons are too good at their jobs. The brain, with its extraordinary computational prowess, can learn language and logic. It can also learn how to be sick.

More here.

Thursday Poem

Girl of Water, I Could Swallow a Garden

engulf any overgrown plot in an afternoon
with my two ungloved hands
tear every undesirable by the root—
pile their light bodies neatly in the barrow.

I remember standing in a field of men at the botanical garden
holding my shining spade. I remember
what the frat boy doing community service
said to me when I told him to plant.

The sweet potato vines winced,
waved their purple leaves from small, black pots.

There is a photograph my father captured
when visiting: me roaming

those grounds I mulched & culled & greenhoused:
long-limbed slip of me,
doe-eyed by the ponds, a girl

full of yellowing waterlilies,
a green image left on paper.

My father has stopped photographing light,
misremembers my name, disappears me.

Now there are trees in that Carolina city
I planted that are twice, three times as tall
as my sons. Now I am so far from the red

dust and fire
ants that bit my skin every day.

People say I used to go around asking for smoke,
say I used to wander through the camellia collection
following boys who carried instruments.

I say I remember riding in the truck looking for coyote
on coffee breaks with Joey, I
remember the one true line I wrote
in those years of landscape and heat:

I’m really a poet. I’m just here for the snakes.

by Natalie Solmer
from the Echotheo Review

Wednesday, July 14, 2021

Stuff Nick Hornby’s Been Reading

Nick Hornby at The Believer:

I have said it before, probably irritatingly, and I will say it again several more times: one of the most remarkable literary projects of this century is being undertaken right now, as we speak, by the social historian David Kynaston. Since 2007 he has been publishing a series of books about Britain between the years 1945 and 1979, when Margaret Thatcher came to power. There have been three so far: Austerity Britain: 1945–51Family Britain: 1951–57, and Modernity Britain: 1957–1962—roughly 2,300 pages, or 135 pages per year. If you are going to treat a country as a person, full of personality, development, joy, tragedy, regression, and contradictions—and that is what Kynaston does—then an allocation of 135 per year is actually pretty disciplined. (If, in the year 2070, someone embarks on a similar project, then the year 2020 will demand several hundred thousand words of its own.) These wonderful books deal with politics and town planning, sport and literature, music and movies, cities and the countryside, and a rather gripping narrative somehow emerges, in the same way that improvising jazz soloists find melodies.

more here.

The Adapted Words of Memmie Le Blanc

Karl Steel in Lapham’s Quarterly:

James Burnett, Lord Monboddo, rich, strange, and Scottish, died at eighty-four in 1799. He was known for exposing himself: he exercised naked before the open windows of his estate and eschewed travel by carriage, insisting instead on riding his horse Alburac through the damp gray of every Scottish season. Like many other men of his ilk and era—Rousseau, Condillac, Mandeville—he speculated at length about language’s origins among our primeval ancestors. He maintained, incorrectly but not unlaudably, that fully articulate speech first appeared in the Black civilization of ancient Egypt; that certain Native American languages were mutually intelligible with Gaelic; and, most notoriously, that orangutans were humans, though just too lazy to learn to speak. For Rousseau orangutans’ humanity was only a hypothesis, but Monboddo asserted it as fact so insistently that the universal wit Samuel Johnson likened him to a man with a tail, but without the shame to try to hide it.

The Scotsman should be remembered less indulgently for attempting, in 1778, to thwart the successful suit for liberty of Joseph Knight, an enslaved man brought by John Wedderburn from Jamaica to what Knight and his supporters maintained was the free soil of Scotland. Johnson’s friend and future biographer, the Scottish lawyer James Boswell, wrote to Johnson to inform him of the outcome. Eight judges ruled for Knight’s freedom—and with it the end of slavery in Scotland. Four ruled against it, including Monboddo, who, as Boswell reported, maintained that slavery should be honored as lawful, as it was present “in all ages and all countries, and that when freedom flourished, as in old Greece and Rome.” The classical pomp of Monboddo’s legal logic perhaps rested on more local foundations: his desire to keep his mastery over a Black man he called Gory.

More here.

The world’s top 50 thinkers 2021

From Prospect:

If the last 18 months haven’t got you thinking, then thinking probably isn’t your thing. We have witnessed microbes’ revenge on civilisation, seen the limits of the “politically possible” being reset and come to revere vaccinologists. We have learned how an economy can keep going after “business as usual” stops, and endured an enforced pause in which we could reconsider life’s priorities. Some of us were conscripted into teaching our children. Some may even have got round to reading the books they had always meant to. Many others didn’t, and got lost instead in armchair epidemiology.

There has been plenty to think about—but what sorts of thought are most important in a world emerging from a pandemic? In consultation with the experts who write for us, Prospect presents the world’s top 50 thinkers for this moment. In lively and occasionally heated discussions about who should make the grade, our criteria were not only originality and eminence within a field, but the singular pursuit of an identifiable idea and an ability to gain traction for it. We also insisted on some form of “intervention”—be it a book, speech or a public stand—over the past 12 months.

More here.

Sean Carroll’s Mindscape Podcast: Stephen Wolfram on Computation, Hypergraphs, and Fundamental Physics

Sean Carroll in Preposterous Universe:

It’s not easy, figuring out the fundamental laws of physics. It’s even harder when your chosen methodology is to essentially start from scratch, positing a simple underlying system and a simple set of rules for it, and hope that everything we know about the world somehow pops out. That’s the project being undertaken by Stephen Wolfram and his collaborators, who are working with a kind of discrete system called “hypergraphs.” We talk about what the basic ideas are, why one would choose this particular angle of attack on fundamental physics, and how ideas like quantum mechanics and general relativity might emerge from this simple framework.

More here.

Inequality and the Macron Commission

Dani Rodrik and Stefanie Stantcheva in Project Syndicate:

Just as the pandemic was gathering pace in early 2020, French President Emmanuel Macron set up an international commission of economists to assess these longer-term challenges and make policy proposals. Headed by the former International Monetary Fund chief economist Olivier Blanchard and the Nobel laureate economist Jean Tirole, the commission debated each of these issues over the course of several months. Interesting proposals emerged from the three reports produced by a subgroup of authors and released at the end of June.

We prepared the report on inequality and economic insecurity. France is an interesting case, because it is one of the few major economies that did not experience an increase in overall inequality, measured by conventional indicators such as the Gini index. Yet, socioeconomic gaps across different strata have not closed, many regions lag behind in creating good jobs and economic opportunity, youth unemployment is very high, and social mobility remains low.

More here.

Reading Jane Eyre as a Sacred Text

Vanessa Zoltan in The Paris Review:

The summer that I did my chaplaincy internship was a wildly full twelve weeks. I was thirty-two years old and living in the haze of the end of an engagement as I walked the hospital corridors carrying around my Bible and visiting patients. “Hi, I’m Vanessa. I’m from the spiritual care department. How are you today?” It was a surreal summer full of new experiences hitting like a tsunami: you saw them coming but that didn’t mean you could outrun them. But the thing that never felt weird was that the Bible I carried around with me as I went to visit patient after patient, that I turned to in the guest room at David and Suzanne’s or on my parents’ couch to sustain me, was a nineteenth-century gothic Romance novel. The Bible I carried around that busy summer was Charlotte Brontë’s Jane Eyre.

I love the idea of sacredness. I want to be called to bigger things, outside of myself. I don’t want my life to be a matter of distractions from death and then death. I want to surprise myself and to honor the ways in which the world surprises me. I want to connect deeply to others, to the earth, and to myself. I want to help heal that which is broken in us. Which is why I went to divinity school at thirty years old. But God, God-language, the Bible, the church—none of it is for me. And halfway through divinity school, I realized that my resistance to traditional religion was never going to change. I wanted to learn how to pray, how to reflect and be vulnerable. And I didn’t think that the fact that I didn’t believe in God or the Bible should hold me back.

I, like many of us, have such complicated feelings about the Bible that it’s distracting to even try to pray with it. Too many caveats feel necessary to even begin to try. So I asked my favorite professor, Stephanie Paulsell, if she would spend a semester teaching me how to pray with Jane Eyre. Throughout the semester, we homed in on what I was searching for, a way to treat things as sacred, things that were not usually considered to be divinely inspired. The plan was that each week I would pull out passages from the novel and reflect on them as prayers, preparing papers that explored the prayers in depth. Then, together, we would pray using the passages.

More here.

Species of gut bacteria linked to enhanced cognition and language skills in infant boys

From Phys.Org:

A University of Alberta-led research study followed more than 400 infants from the CHILD Cohort Study (CHILD) at its Edmonton site. Boys at one year of age with a gut bacterial composition that was high in the bacteria Bacteroidetes were found to have more advanced cognition and language skills one year later. The finding was specific to male children. “It’s well known that female children score higher (at early ages), especially in cognition and language,” said Anita Kozyrskyj, a professor of pediatrics at the U of A and principal investigator of the SyMBIOTA (Synergy in Microbiota) laboratory. “But when it comes to gut microbial composition, it was the male infants where we saw this obvious connection between the Bacteroidetes and the improved scores.”

“The differences between male and female gut microbiota are very subtle, but we do know from CHILD Cohort Study data that girls at early ages are more likely to have more of these Bacteroidetes. So perhaps most girls have a sufficient number of Bacteroidetes and that’s why they have improved scores over boys,” added Kozyrskyj. The researchers, led by Kozyrskyj and associate professor of pediatrics Piush Mandhane, studied bacteria found in fecal samples from the infants and identified three different groups exhibiting similar dominant clusters of bacteria. They then evaluated the infants on a variety of neural developmental scales. Of those groups, only the male infants with Bacteroidetes-dominant bacteria showed signs of enhanced neurodevelopment.

More here.

A Battle Between a Great City and a Great Lake

Dan Egan at the NYT:

So, Chicago’s leaders got creative. Instead of putting sewers under the streets, they put sewers on top of the streets, then built new roads atop the old ones. They effectively hoisted the city out of the swamp.

Buildings in downtown were raised by as much as eight feet, an enterprise that required placing immense beams and jackscrews beneath their foundations. Then, a conductor would direct hundreds of laborers in the precisely choreographed turns of the screws to lift the structures out of the muck.

“The superintendent takes his stand,” the Chicago Tribune wrote at the time, and with a “shrill whistle” directs the crew to begin.

more here.

Tuesday, July 13, 2021

The “culture wars” affect how people vote—but not in the way you might think

Christabel Cooper in Prospect:

We all know the story by now. The “culture wars” used to only be fought in America. In Britain, party support was strongly linked to views on an economic left-right axis; if you believed in extensive government intervention and redistribution then you voted Labour, if you believed in a small state and leaving markets to their own devices, you voted Conservative. But in the last decade, beliefs around values and identity have become increasingly important in UK as well as American politics—at the last UK general election, a voter’s position on values (for example whether they thought the death penalty should be reintroduced) was just as likely to determine their vote as their position on economics.

The EU referendum result exemplified this split: overwhelmingly people with very liberal attitudes voted to remain in the EU whereas those with more conservative views (who, for example, were often hostile towards immigration) tended to vote for Brexit. At a certain point the analysis becomes stretched. The winning Leave vote has frequently been portrayed as a protest by this socially conservative majority against aloof, unresponsive liberal Remainers. Five years on, much of the UK press still paints a picture of a country riven by splits over culture and values, where social conservatives angrily reject the continued attempts of a liberal minority to enforce an unpopular “woke” agenda. The recently-launched GB News was founded on the idea that there is a large, conservative audience which feels that its side of the culture war is being ignored by existing media outlets.

But new research from the Policy Institute presents a different picture. Much of the public, it finds, is confused about terms such as “culture war” or “woke.”

More here.

Coronavirus Delta Variant: Everything You Need to Know

Tomas Pueyo in his Substack Newsletter:

The original Coronavirus variant has an R0 of ~2.71. Alpha—the “English variant” that caused a spike around the world around Christmas—is about 60% more infectious. Now it appears that Delta is about 60% more transmissible yet again. Depending on which figureyou use, it would put Delta’s R0 between 4 and 9, which could make it more contagious than smallpox. Just to give you a sense of the dramatic consequence of such an increase in R, this is what two months of growth get you with the previous transmission rate of 2.7 vs. with an R of 6 [see figure].

This is why so many graphs of cases look like rockets these days. Delta is very contagious.

Apparently, somebody in Australia was infected by the Delta variant just by walking past an infected person, in a 5- to 10- second encounter. Although this is probably an outlier, and we shouldn’t be scared of walking past other people as a rule of thumb, it illustrates how much more transmissible Delta is.

More here.

Identity Tethering in an Age of Symbolic Politics

Mark Dunbar in The Hedgehog Review:

Identities are dangerous and paradoxical things. They are the beginning and the end of the self. They are how we define ourselves and how we are defined by others. One is a “nerd” or a “jock” or a “know-it-all.” One is “liberal” or “conservative,” “religious” or “secular,” “white” or “black.” Identities are the means of escape and the ties that bind. They direct our thoughts. They are modes of being. They are an ingredient of the self—along with relationships, memories, and role models—and they can also destroy the self. Consume it. The Jungians are right when they say people don’t have identities, identities have people. And the Lacanians are righter still when they say that our very selves—our wishes, desires, thoughts—are constituted by other people’s wishes, desires, and thoughts. Yes, identities are dangerous and paradoxical things. They are expressions of inner selves, and a way the outside gets in.

Our contemporary politics is diseased—that much is widely acknowledged—and the problem of identity is often implicated in its pathology, mostly for the wrong reasons. When it comes to its role in our politics, identity is the chief means by which we substitute behavior for action, disposition for conviction. Everything is rendered political—from the cars we drive to the beer we drink—and this rendering lays bare a political order lacking in democratic vitality. There is an inverse relationship between the rise of identity signaling and the decline of democracy.

More here.