Hugo Hacker News

Programmable icosahedral shell system for virus trapping

chrisweekly 2021-08-18 14:11:51 +0000 UTC [ - ]

> "Using computational genetic engineering, researchers at the Technical University of Munich (TUM) say they have invented a method of killing any type of virus. The researchers say they have demonstrated their solution on previously incurable hepatitis-B viruses, and are next aiming at the coronavirus.

The deoxyribonucleic acid (DNA) origami base-pair key-in-lock method they devised yields sphere-like icosahedral shells that kill viruses by clamping around each virion (the complete, infective form of a virus outside a host cell) until it is dead, dead, dead."

This sounds pretty amazing. Human trials being "years away" is no surprise, but here's hoping it gets there soon.

ffhhj 2021-08-19 03:26:07 +0000 UTC [ - ]

Sounds "simple" enough for an organism to evolve a defense system like this. Why it isn't present in current living forms after millions of years of evolution? Or if it ever existed, maybe it devolved.

alecst 2021-08-18 15:58:00 +0000 UTC [ - ]

Original paper: https://www.fradenlab.com/app/download/9774776565/s41563-021...

Edit: sorry for the previously bad link. Didn't notice.

From what I get, it looks like the traps basically smother the viral shell and prevent it from interacting with any surfaces.

They tried a couple methods to achieve this. Either assembling the shells around the virus, or starting with pre-assembled shells with a hole in them (an icosahedron with a pentagon missing.) For the latter case, they were able to neutralize more than one viral particle by making the shells big enough.

My main question is how the viruses find their way reliably into these preassembled traps.

Blackthorn 2021-08-18 20:34:43 +0000 UTC [ - ]

> My main question is how the viruses find their way reliably into these preassembled traps.

I've always wondered that about enzymes, just one of the many reasons I'm not a biochemist.

candiodari 2021-08-18 22:21:09 +0000 UTC [ - ]

Brownian motion means molecules inside your body move at ~10000kph (and because it’s random they don’t go anywhere). They’re bouncing around at that speed inside a 30 cubic micrometer ball.

At that speed they meet every other molecule. Not just meet, but touch them everywhere, at every angle, in every configuration.

scotty79 2021-08-18 15:26:58 +0000 UTC [ - ]

> Subsequent in vivo (within a living organism) testing on mice showed the DNA-origami traps were capable of targeting individual virions inside the body, disarming them without disrupting bodily functions, and finally destroying them with natural immunological mechanisms.

It's wonderfully surprising that body can have bunch of free floating DNA constructs inside without triggering strong immune response.

SideburnsOfDoom 2021-08-18 15:28:14 +0000 UTC [ - ]

> Subsequent in vivo testing on mice showed the DNA-origami traps were capable of targeting individual virions

... in mice.

Sorry, that's an in-joke:

https://twitter.com/justsaysinmice

https://jamesheathers.medium.com/in-mice-explained-77b61b598...

dnautics 2021-08-18 16:46:28 +0000 UTC [ - ]

> It's wonderfully surprising that body can have bunch of free floating DNA constructs inside without triggering strong immune response.

I would be very scared of a free floating DNA machinery therapeutic, as Lupus is associated with anti-dsDNA, (to be fair we don't know what direction the causal arrow is), and it's such a long and chronic condition that I would doubt the ability to model it in early stage preclinical or even find it in phase I safety. For some conditions phase 4 is way too late.

spywaregorilla 2021-08-18 18:05:37 +0000 UTC [ - ]

yeah this feels like a prime candidate for sci fi "good thing turned out to be a bad thing"

UncleOxidant 2021-08-18 15:33:15 +0000 UTC [ - ]

Mouse bodies, anyway.

toytoyr 2021-08-18 14:16:04 +0000 UTC [ - ]

What happens to the millions of traps floating inside a person's bloodstream after they do their job? Do they eventually get dismantled by the immune system?

tmikaeld 2021-08-18 14:43:46 +0000 UTC [ - ]

Maybe? It's formulated really badly, you don't know if they mean the virus or the traps...

"Subsequent in vivo (within a living organism) testing on mice showed the DNA-origami traps were capable of targeting individual virions inside the body, disarming them without disrupting bodily functions, and finally destroying them with natural immunological mechanisms."

rolph 2021-08-18 17:23:37 +0000 UTC [ - ]

free floating DNA is a pathogenic state of affairs and will be phagocytosed, the aptamer/virion complex will be shredded and the molecular debris is incorporated into antigen presenting complex initiating development of immunity

Firehawke 2021-08-19 03:36:20 +0000 UTC [ - ]

I would assume that with the rate the human body replaces blood they'd end up getting removed over time.

sjg007 2021-08-18 16:21:04 +0000 UTC [ - ]

DNA and RNA get degraded all the time..

gene-h 2021-08-18 16:01:28 +0000 UTC [ - ]

The traps require antibodies specific to the virus, so what's the advantage of this over other antibody therapies? Producing antibodies for therapies is expensive enough and producing DNA origami may not necessarily scale.

sjg007 2021-08-18 16:20:30 +0000 UTC [ - ]

DNA apatmers are used all the time in science. The key will be productizing them for in vivo delivery. They would have to be immuno-reactive only when they bind their target and the response will need to be to the target and not the aptamer.

EGreg 2021-08-18 16:29:47 +0000 UTC [ - ]

That’s APTAMERS btw for anyone reading

rolph 2021-08-18 17:20:02 +0000 UTC [ - ]

its good that you underscore that, there is the ADaptOmer that is also a DNA strand but is used as an adapter to bind two other molecular entities into an ADAPTOMER complex.

APtamers bind a single entity

dynamite-ready 2021-08-18 14:44:21 +0000 UTC [ - ]

This sounds like an even bigger story than the Moderna HIV vaccine trial post yesterday.

not2b 2021-08-18 16:00:04 +0000 UTC [ - ]

Don't think so. One is a promising-sounding experiment, the other is a serious effort by a company with a track record of delivering effective vaccine doses by the billion that already has something ready for human trials.

eutectic 2021-08-18 14:53:12 +0000 UTC [ - ]

I guess this wouldn't work as a cure for HIV if it only kills actively replicating virus. Still amazing if it works in practice.

2021-08-18 16:07:33 +0000 UTC [ - ]

dsign 2021-08-18 14:44:52 +0000 UTC [ - ]

This is very cool. But the article doesn't say anywhere if the effect is high enough to cure disease.

dotcommand 2021-08-18 16:40:36 +0000 UTC [ - ]

Thought this was going to be about computer viruses and was wondering how traps could possibly combat it. But alas it's about biological viruses.

bbarnett 2021-08-18 14:16:03 +0000 UTC [ - ]

We already know that viruses play a role in cross species genetic transfer.

And we still don't 100% know if HERV serves some real purpose or not.

I hope this "all viruses" is "when we choose to go after specific ones".

mdbauman 2021-08-18 14:34:02 +0000 UTC [ - ]

Yep, it sounds like a (semi?)unique structure is required for each target virus.

> A specific combination of nucleotides is first modeled in simulation to be the correct size to handle the target virus

silvester23 2021-08-18 14:46:08 +0000 UTC [ - ]

From the article:

> Dietz said the interior of the shells were coated with "antibodies specific for the hepatitis-B virus. You can think of the shells as a generic platform; depending on your selection of inner coatings, you can 'program' them to be specific for a user-defined target virus."

chwzr 2021-08-18 14:47:10 +0000 UTC [ - ]

for my understanding its the combination of shell size and coating which does the targeting.

JoeAltmaier 2021-08-18 14:30:44 +0000 UTC [ - ]

Um, you go ahead and volunteer for cross-species genetic transfer experiments. I'll take the innoculation thanks.