Biosensors for Colorectal Cancer

Hannah Thomasy in The Scientist:

The human gut is awash in a sea of microbes that quietly ferment fibers, produce vitamins, and exchange information with the immune system.1 Now, scientists are tasking bacteria with yet another job as they spelunk their way through the digestive system: cancer detection.

An international team of researchers engineered a bacterial biosensor capable of identifying a cancer-associated DNA mutation, which they published in the journal Science.2 The research team included molecular biologists Robert Cooper and Jeff Hasty of the University of California, San Diego and bowel cancer researchers Josephine Wright and Susan Woods at the South Australian Health and Medical Research Institute, and Daniel Worthley at the Colonoscopy Clinic. The study authors hope that this technology will one day aid in the early diagnosis of colorectal cancer, one of the most common causes of cancer-related death globally.

While scientists have previously engineered bacteria to detect inflammation or bleeding in the gut, this is the first bacterial biosensor that detects a specific DNA sequence from host tissues. To accomplish this feat, scientists leveraged Acinetobacter baylyi’s ability to take up extracellular DNA and integrate these sequences into its own genome.

More here.

Thursday Poem

where am i going

—for my papi & my brothers

where are we? a bleeding border. a ghost ancestor mopping it up.
another on lookout watching the sun. a stolen gavel mashes soft fruit

to the music. they whisper some dreams stay dreams. they call the sonidera
and ask her to make a sonido for sadness. where are we going?

a country where my momma’s wounds can’t enter. land with water food
peace of mind. sometimes silence is its own music like 2007

when abuelito passed and love grew thicker. a land where not everything
costs a whole body. a land where music gets so loud it harbors grief.

the tejas sun left burn marks on my face after stealing my brothers
as the moon bore witness. in blue-red light, our blood glows black. procedural

safeguards collapse inward and so, send me back to my kin’s killers, my burning
country, ma, are we there yet? where the sun is the same sun. where i sleep, earbuds

spilling out pop songs. exposed wire at my neck, you sing soft
no country can hold us, no country can hold us.

by Yazud Brito-Milian 
from
Muzzle Magazine, Fall 2023
(author’s reading of this poem can be found at the link above)

Psychedelic treatments are speeding towards approval — but no one knows how they work

Sara Reardon in Nature:

Psychedelic drugs have been undergoing a major makeover in psychiatry, earning mainstream acceptance that has eluded them for decades. In 2019, a variant of ketamine — an animal tranquillizer well known as a club drug — was approved by the US Food and Drug Administration (FDA) for treating post-traumatic stress disorder (PTSD). In May, Oregon opened its first treatment centre for administering psilocybin — the hallucinogenic compound found in magic mushrooms — following the state’s decision to legalize it (psilocybin remains illegal at the federal level). And, after decades of effort, the Multidisciplinary Association for Psychedelic Studies, a non-profit research organization in San Jose, California, formally asked the FDA for approval to market MDMA — also known as molly or ecstasy — as a treatment for PTSD.

Most specialists expect the MDMA approval to go through on the weight of clinical evidence and popular support. Two large trials have shown that the drug can reduce the symptoms of PTSD when administered in controlled therapy sessions1,2. And it seems to do so more quickly than other treatments. But how MDMA and other psychedelics work is still largely a mystery, both because the drugs have long been illegal and because psychiatric conditions are difficult to study in animals.

More here.

Keeping Company With Outdoor People

William T. Vollmann at Harper’s Magazine:

Awakening to the snowy sunny morning of Tuesday, March 7, 2023, I took due pleasure in looking out through my white curtains at white sun glare that appeared almost warm from within. Why not stroll outdoors? Should I take a chill, this warm room would receive me again—and, after all, certain dark brown puddles in the vacant lots along Second Street implied that spring might impend, never mind that unpleasantly cold breeze on the river, or the refusal of First Street’s prizeworthy icicle crop to even begin dripping. You see, I like to believe in spring almost as does a Christian in heaven. Why fret about unborn summer problems? The wind might numb my face, but my hands felt warm enough in their leather work gloves. In brief, I was a doughty tourist here in Reno, Nevada, on whose downtown I had fixed with the design of finding three homeless men—for in the United States, cities often rot from the center out. Since Reno’s incorporation dates to 1903, her downtown, I reasoned, ought by now to hold a skid row, or at least a few vagrants. Right away I won a jackpot of sorts: between Second and Third at Bell ran a long slushy alley with glary mountains of snow at its eastern end, while several blocks to the west a man in a blue parka, from whose wheeled conveyance hung at least fifteen black garbage bags, kept inspecting and adjusting his setup under the surveillance of a row of sparrows on a power line. I surveilled him, too.

more here.

Willlard Boepple’s “Shards”

Michael Fried at nonsite:

Willard Boepple’s “Shards” fuse two art forms, sculpture and monoprints, to make a third which is sui generis and yet partakes of both of the others. Most intimately, the “Shards” bear a relation to the intensely coloristic monoprints that Boepple has been making since roughly 2004 in collaboration—following his choices and decisions—with Kip Gresham, a master printmaker in Cambridge, England. As described by Karen Wilkin in her indispensable book on the artist:

Each shape goes down on the paper as an expanse of uninflected, transparent color. [The shapes determined by stencils prepared beforehand.] As other shapes are added, the overlapping hues create new densities and new colors. Changing the sequence can further alter these tonal and chromatic relationships, creating new spatial suggestions, so that we read each of these unique images differently.1

“New spatial suggestions” is right.

more here.

The Courage to Forget

Firmin DeBrabander at The Hedgehog Review:

“I have discovered a potion for memory and wisdom,” the Egyptian god of the underworld tells the King of Thebes in an exchange recounted by Plato. This “magic potion,” it turns out, is writing. Previously, stories and histories, facts and fables were passed on orally. Minstrels would commit to memory the whole of the story of Troy, for example, which Homer ultimately put to the page. This was challenging work, time consuming, and imprecise. Stories were liable to variation, and exaggeration. Heroes were perhaps overly exalted. Details, dates, even characters would change over time. Writing solved many of these problems, and perfected our ability to recall.

But the King of Thebes is not impressed. Writing will “introduce forgetfulness,” he says. People will no longer “practice their memory because they will put their trust in writing… instead of trying to remember from the inside, completely on their own.” It is uncanny how his worries anticipate current critiques of technologies, which allow us to outsource cognitive duties and habits, and deactivate parts of our mind.

More here.

The Intelligence and Rationality of AI and Humans: A Conversation With Steven Pinker

Xiao-Li Meng and Liberty Vittert at the Harvard Data Science Review:

Xiao-Li Meng: Well, thank you so much, Steve, for joining us. I know how busy you are, so let’s just get to it. What is intelligence? What are the key components? What do you think constitutes intelligence?

Steven Pinker: I think intelligence is the ability to use knowledge to attain goals. That is, we tend to attribute intelligence to a system when it can do multiple things, multiple steps or alternative pathways to achieving the same outcome: what it wants. I’m sitting here right now in William James Hall, and my favorite characterization comes from William James himself, the namesake of my building, where he said, “‘You look at Romeo pursuing Juliet, and you look at a bunch of iron filings pursuing a magnet, you might say, ‘Oh, same thing.’ There’s a big difference. Namely, if you put a card between the magnet and filings, then the filings stick to the card; if you put a wall between Romeo and Juliet, they don’t have their lips idiotically attached to opposite sides of the wall.” Romeo will find a way of jumping over the wall or around the wall or knocking down the wall in order to touch Juliet’s lips.’ So, with a nonintelligence system, like physical objects, the path is fixed and whether it reaches some destination is just accidental or coincidental. With an intelligent agent, the goal is fixed and the path can be modified indefinitely. That’s my favorite characterization of intelligence.

More here.

The Radicalization of the American Mind

Rikki Schlott and Greg Lukianoff at Persuasion:

A 2019 study found that on both the left and right, people overestimate how prevalent extreme views are on the opposite side—something that was especially true of those who rely on social media for their news.

This is the modern manifestation of the anthropological phenomenon schismogenesis, which contends that group identity is formed in opposition to competing groups. Like the ancient Athenians and Spartans, by defining ourselves as being “the complete opposite of those guys,” we become less and less like each other—and more and more confident that our way is the right way.

This has been true since social media’s inception. But it’s only been worsened by a series of mass bans, particularly on Twitter, the digital home for all things political.

More here.

Brice Marden

Gary Garrels at Artforum:

BRICE MARDEN was an artist for whom intensive looking was essential. To be with him in the studio or in a museum was to focus as hard as possible on the work of art in front of your eyes. Words never disrupted the silence of seeing.

Light was always a fundamental subject of Brice’s work. It is what enables us to see. Different light reveals different aspects of what we observe, opening different experiences. Brice worked with the distinct qualities of light in discrete locations. He loved the light of New York, what he argued was a beautiful, silvery light coming off the water—a northern, colder light that is very clear. By contrast, the light in Hydra, Greece, where he had maintained a home and studio since the early 1970s, was brilliant and intense. The landscape also shifts the effects of light. New York has skyscrapers and steel. Greece has palm, pine, and olive trees. Brice would say that color has to be brought up to the light, that pigment is simply a substance that reacts to light.

more here.

The Revolutionary Temper: Paris, 1748–1789

John Adamson at Literary Review:

Darnton chooses forty or so ‘happenings’ from the four decades before the French Revolution, each crisply recounted in chapters that rarely run to more than ten pages, and assesses what Parisians made of them. All the period’s great political événements are here: Louis XV’s calamitous foreign wars and the humiliating treaties that ended them; the repeated clashes between royal government and the Paris Parlement (the city’s hugely prestigious high court); the summoning of the Estates General and the fall of the Bastille. So too are the great cultural events of the age: we have the publication of Diderot and d’Alembert’s Encyclopédie, Rousseau’s Emile and Voltaire’s Traité sur la tolerance (his plea for religious toleration), along with the performance of Beaumarchais’s hierarchy-subverting Mariage de Figaro – the great succès de scandale of the 1770s Parisian stage – and much else. Even the first public balloon flight over Paris in 1783, emphasising the boundless possibilities of science, finds its place on Darnton’s list.

more here.

Wednesday Poem

Maybe Lewiston

Maybe we will see Katahdin, we tell our children; maybe we will see a moose.
…… Pulling over at the Lewiston Travel Center,
trucks at the tagging station, hunting season just beginning.
…… Death like a warm meal; Death like a family reunion; Death like a game.

We always take precautions hiking,
…… blaze-orange hats in the back of the car.
Once a woman weeding her garden was mistaken for a deer.
…… Death like a stray bullet; Death like a mistake.

Inside the Circle K everyone is grabbing whoopie pies and hot slices.
…… My son wants a Halloween skull.
We tell him there will be plenty of time for souvenirs.
…… Death like a pirate; Death like a clown.

Heading north the road is empty, ambulance screaming in the other direction,
…… police cars, helicopter searchlight desperate circling.
What’s happening, I wonder. Someone is lost, my husband answers.
…… Death like a whisper; Death like a broken mirror; Death like a Passover prayer.

We are too late to see Katahdin, pass the turnoff, scenic view;
…… we keep right on driving. I imagine a moose
behind the dark trees, watching; a sign to stay grounded.
…… Death like a warm meal; Death like a family reunion; Death like a game.

We find out that night. First thing in the morning,
…… detouring past Lewiston, I keep searching the woods for meaning:
Amber leaves a tracksuit; frost a car of interest; shadow a man with a gun;
…… Death in the passenger seat. Death on manhunt. Death still at large. Death on the run.

by Katherine Hagopian Berry
from Rattle Magazine —
Poets Respond October 29, 2023

 

Cancer drugs cause large cells that resist treatment; scientist aims to stop it

Will Sansom in UTHSCSA:

A cancer therapy may shrink the tumor of a patient, and the patient may feel better. But unseen on a CT scan or MR image, some of the cells are undergoing ominous changes. Fueled by new genetic changes due to cancer therapy itself, these rogue cells are becoming very large with twice or quadruple the number of chromosomes found in healthy cells. Some of the cells may grow to eight, 16 or even 32 times the correct number. Quickly, they will become aggressive and resistant to treatment. They will eventually cause cancer recurrence.

…“When you give therapy, some cells don’t die,” explained Dr. Mahadevan, leader of hematology and medical oncology care at the Mays Cancer Center, home to UT Health San Antonio MD Anderson. “These cells don’t die because they’ve acquired a double complement of the normal chromosomes plus other genetic changes. Many types of chemotherapy actually promote this.”

Dr. Mahadevan found that two cancer-causing genes, called c-Myc and BCL2, are operative in “double-hit” high-grade lymphomas, which are incurable. “These genes are part of the problem, because when they are present, they help the lymphoma cells to live longer and prime them to become large cells with treatment,” he said. Although the drugs seem to be working, once therapy is stopped, the large rogue cells (called tetraploid cells) start to divide again and become smaller but faster-growing cells, driven by c-Myc and BCL2.

“It’s a double hit, a double whammy,” Dr. Mahadevan said.

To counter this, Dr. Mahadevan seeks to find drugs that prevent or treat the rogue cells’ acquisition of multiple chromosomes. He has identified a small-molecule inhibitor that shows promise in cell experiments in the laboratory. “We have data to show that it works,” he said.

More here.

Human-Driven Evolution Is a Hallmark of the Anthropocene

Lizzie Wade in Anthropocene:

During World War II, Londoners often sought shelter from German bombs in the city’s subway tunnels. There, they encountered another type of enemy: hordes of voracious mosquitoes. These weren’t your typical above-ground mosquitoes. They were natives of the Underground, born in pools of standing water that pockmarked the underground passageways. And unlike their open-air cousins, London’s subterranean skeeters seemed to love biting humans.

Fifty years after the war ended, scientists at the University of London decided to investigate the subway population. They collected eggs and larvae from subway tunnels and garden ponds and reared both populations in the lab. The outdoor mosquitoes fed on birds, but the tunnel bugs preferred mammal blood. And when the scientists put males and females from the different populations into close quarters designed to encourage mating, not a single pairing produced offspring. That sealed the deal: the underground mosquitoes were a whole new species, adapted to life in the subway tunnels people had built.

More here.