Category: ScienceNews

Back in November it was announced that an AI company called DeepMind had essentially cracked the problem of protein folding – that is they had managed to successfully predict the 3D structures of complex biochemical molecules by only knowing the 2D sequence of amino acids from which they are made.

They are not the only team to use machine learning to approach the vast amounts of data involved. But last week, they released the source code and methodology behind their so called AlphaFold2 tool. Today, they are publishing via a paper in the journal Nature, a simply huge database of predicted structures including most of the human proteome and 20 other model species such as yes, mice. The possibilities for any biochemists are very exciting.

As DeepMind CEO Demis Hassabis tells Roland Pease, they partnered with the European Molecular Biology Laboratory to make over 350,000 protein predictions available to researchers around the world free of charge and open sourced. Dr Benjamin Perry of the Drugs for Neglected Diseases Initiative told us how it may help in the search for urgently needed drugs for difficult diseases such as Chagas disease. Prof John McGeehan of the Centre for Enzyme Innovation at Portsmouth University in the UK is on the search for enzymes that might be used to digest otherwise pollutant plastics. He received results (that would have taken years using more traditional methods) back from the AlphaFold team in just a couple of days.

Prof Julia Gog of Cambridge University is a biomathematician who has been modelling Covid epidemiology and behaviour. In a recent paper in Royal Society Open Science, she and colleagues wonder whether the vaccination strategy of jabbing the most vulnerable in a population first, rather than the most gregarious or mobile, is necessarily the optimal way to protect them. Should nations still at an early stage in vaccine rollout consider her model?

And did you know that elephants can hear things up to a kilometre away through their feet? And that sometimes they communicate by bellowing and rumbling such the ground shakes? Dr Beth Mortimer of Oxford University has been planting seismic detectors in savannah in Kenya to see if they can tap into the elephant messaging network, to possibly help conservationists track their movements.

Image: Protein folding Credit: Nicolas_/iStock/Getty Images

Presenter: Roland Pease Producers: Alex Mansfield and Samara Linton

Squirrels are everywhere — living in our suburban neighborhoods to our city centers to our surrounding wilderness. Rhitu Chatterjee talks with researcher Charlotte Devitz about squirrels and how studying them might help us better understand the changing urban environment.

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We talk to NPR's India correspondent Lauren Frayer about the ridiculously complicated science involved in measuring Mount Everest, the world's highest peak. And why its height is ever-changing. (Encore episode)

Read Lauren's reporting on Mt. Everest.

Have other quirks of the planet on your mind? Tell us by emailing shortwave@npr.org.

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COVID-19 cases are on the rise in the last month due to the Delta variant. NPR correspondent Allison Aubrey talks with Emily Kwong about where the virus is resurging, how some public health officials are reacting and what they are recommending. Also, with a spate of outbreaks at summer camp, officials are weighing in on what parents can do before they send children to camp.

What

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As a kid, Jasmin Graham was endlessly curious about the ocean. Her constant questioning eventually led her to a career in marine science studying sharks and rays. But until relatively recently, she had never met another Black woman in her field.

That all changed last year when she connected with a group of Black women studying sharks through the Twitter hashtag #BlackInNature. Finding a community was so powerful that the women decided to start a group.

On today's show, Jasmin talks with host Maddie Sofia about Minorities in Shark Sciences (MISS) and how it's uplifting women of color through hands-on workshops and community building.

To see pictures of MISS's first workshop check out their website.

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Anyone who has ever taken the Christmas lights out of the cupboard, only to discover they’re hopelessly tangled, will sympathise with this week’s listener Eric. He has a 45m garden hose that always seems to snarl up and snag when he waters his garden, and he wonders what he’s doing wrong?

Marnie starts by discovering the important difference between tangles and knots, as she scales a cliff with an experienced climber who explains the way you tie rope is a matter of life and death.

Physicists are also fascinated in how string becomes jumbled up and one man has even won an IgNobel award for his work in this field. Doug E Smith discovered that if you put a piece of string in a box then spin it around, its length, thickness and how long you shake the box for, all determine whether it will tie itself up. Not only that, the more the string becomes twisted, the more likely it is to cross over itself and become impossible to untangle.

While tangles might be annoying in hair or cables, they’re also a fundamental part of human life. Our DNA is constantly folding itself to fit inside tiny spaces – there are two metres of the stuff inside every cell, where it’s packed down tightly, before it must untangle and duplicate for those cells to divide. It does this with the help of specific enzymes, and when the process goes wrong it leads to cell death. But scientists are also studying molecular tangles that might benefit us humans, and creating nano-sized knots that can be turned into nets or meshes with incredible properties. Producer: Ilan Goodman Presenter: Marnie Chesterton

July is National Ice Cream Month — and Sunday, July 18 is National Ice Cream Day (in the US)! Flavors range from the classics — vanilla and chocolate — to the adventurous — jalapeño and cicada. But for some people, including ice cream scientist Dr. Maya Warren, flavor is only one part of the ice cream allure. So in today's episode, Emily Kwong talks with Short Wave producer Thomas Lu about some of the processes that create the texture of ice cream, and how that texture plays into our enjoyment of the tasty treat.

You can follow Thomas on twitter @thomasuylu and Emily @emilykwong1234. Email the show with suggestions or thoughts at ShortWave@NPR.org.

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This week the UK parliament voted to accept the Government’s continued cap on Official Development Aid. This disappointed many researchers around the world, funded directly and indirectly through various scientific funding structures enabling international collaboration on some of the global challenges facing all of us. These funding mechanisms make for a small fraction of the overall amount, but they have been hit hard, with many projects closing altogether.

There had been hope amongst the scientific community that the cap – from 0.7% down to 0.5% of the UK’s Gross Domestic Income – might have been in place just for a year. But it seems like the criteria set to judge when the level of aid might rise again imply that it is unlikely to happen for several years at the earliest.

What, asks Science in Action, does that mean to the world of scientific collaboration on such topics as climate change, contagious disease, and emergency planning?

Researchers Chris Trisos and Jenni Barclay, with journalist Robin Bisson of Research Professional News, update us on the story.

In Zambia, where covid testing remains scarce, a project run by Boston University’s Christopher Gill has been estimating the prevalence of covid in the capital Lusaka by taking nasal swab samples from the noses of around one in five of those recently deceased, in the morgue of a major hospital. Tantalisingly, his team have seen over the last few months a sharp rise in cases to the extent that in June, nearly 90 percent of the cadavers tested positive for covid. But as Chris describes, unrelated to the UK cuts, their funding has now run out, so where the graph leads from here we may not learn for a long time.

Presented by Roland Pease Produced by Alex Mansfield.

(Image: Getty Images)

Delta is quickly becoming the dominant coronavirus variant in multiple countries. The variant has spread so fast because it is more contagious than the variants that came before it. At the same time, the U.S. is equipped with highly effective vaccines. Ed Yong, science writer for The Atlantic, talks with Maddie about the interaction between the variants and the vaccines and how that will be crucial in the months ahead.

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Contrary to sci-fi depictions in shows like Iron Man and Star Wars, getting from point A to point B in space is a tough engineering problem. NPR Science Correspondent Geoff Brumfiel explains how space propulsion actually works, and why some new technologies might be needed to get humans to Mars and beyond.

Follow Geoff Brumfiel and Short Wave co-host Emily Kwong on Twitter. Email the show at shortwave@npr.org.

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