I truly don’t know how we undo the damage the Right has done not just to science institutions but to simply the desire to educate and be educated in this country. Many of our systems of scientific outreach are irreversibly dead and there was little pushback from the public.

Guy Who Sucks At Being A Person Sees Huge Potential In AI https://theonion.com/guy-who-sucks-at-being-a-person-sees-huge-potential-in-1850488022/

Riboseek is a fast RNA/DNA search. More sensitive than nhmmer at 250x speed. Structure-aware realignment produces MSAs approaching rMSA quality. Plus 1.7M precomputed RNA MSAs, and an API to search your own 📄 www.biorxiv.org/content/10.6... 💾 github.com/steineggerla... 🌐 search.foldseek.com/riboseek

JUST A REMINDER: Not everyone will be able to see the Spider-Mans on Day One or even on Weekend One. Some of us will need to wait to see the Spider-Mans. Please do not spoil for us the Spider-Mans, and definitely don't put spoilers in article headlines, news sites I follow. Thank you.

Spider-Man: Thanks... Partner.

ALT: Spider-Man: Thanks... Partner.

static.klipy.com

#secmet !

Nadine Ziemert@nadineziemert.bsky.social · last mo.

Looking for BGCs in large metagenomic datasets? Our new biorxiv preprint introduces metaSMASH, a scalable fork of antiSMASH designed specifically for metagenome-scale BGC detection and analysis : www.biorxiv.org/cgi/content/... Thanks @canerbagci.bsky.social and @kblin.bsky.social ❤️

Looking for BGCs in large metagenomic datasets? Our new biorxiv preprint introduces metaSMASH, a scalable fork of antiSMASH designed specifically for metagenome-scale BGC detection and analysis : www.biorxiv.org/cgi/content/... Thanks @canerbagci.bsky.social and @kblin.bsky.social ❤️

metaSMASH: Scalable Biosynthetic Gene Cluster Detection for Large Metagenomic Assemblies

antiSMASH is widely used for biosynthetic gene cluster (BGC) detection and annotation, but its standard workflow is poorly suited to large metagenomic assemblies, where massive contig counts create severe runtime bottlenecks and complicate downstream result exploration. We present metaSMASH, a re-engineered fork of antiSMASH for metagenome-scale BGC analysis. metaSMASH preserves the original antiSMASH detection and annotation logic while introducing streaming, memory-bounded execution, record-level parallelisation, optional output filtering, and an interactive dashboard for large result sets. Across 25 benchmark metagenome datasets, metaSMASH reproduced identical BGC detection results while dramatically reducing computational cost. Relative to the default antiSMASH configuration, metaSMASH was a geometric-mean 38x faster. It also outperformed an ad hoc chunked antiSMASH workflow: in the default configuration it achieved a geometric-mean 2.9x speed-up and 1.7x lower peak memory, and with extended-analysis modules enabled it was 2.7x faster and used 3.1x less memory while completing all datasets, whereas the ad hoc workflow ran out of memory on the two largest assemblies. By substantially reducing the computational burden of large-scale metagenome analysis without sacrificing result equivalence, metaSMASH makes routine mining of assembled metagenomes more practical and provides a scalable foundation for natural product discovery from complex microbial communities. ### Competing Interest Statement The authors have declared no competing interest. German Center for Infection Research, TTU Novel Antibiotics 09.716 Volkswagen Foundation, 0072511-00

biorxiv.org

metaSMASH: Scalable Biosynthetic Gene Cluster Detection for Large Metagenomic Assemblies www.biorxiv.org/content/10.6... #jcampubs

Journalists: please, please get ready for this in ADVANCE. We know Trump's going to claim "new evidence shows the 2020 election was stolen". You've got 3 days to write a story that confronts that lie head-on before he says it - pre-write this like an obit. America is begging you: plan ahead. 1/

Aaron Rupar@atrupar.com · 2mo ago

it's even dumber than you think

Anybody knowledgeable about identifying spiders? I've snapped this one in my in-laws' garden. I'm thinking it's a Zilla Diodia orbweaver? Never seen one of those before but the abdomen markings and colouration match well with what's on the internet.

Having a zero tolerance policy for Nazi shit continues to be proven correct.

Am I crazy to be writing an NSF proposal when they aren’t giving any grants right now? But I’m getting close to having to close down my lab, which is so sad I feel that I have to do something

Funniest GIF of all time? I'll go first.

static.klipy.com

🚨The OMB rule will be the end of science as we know it. MARK YOU CALENDAR for the @standupforscience.net EMERGENCY SCIENCE MEETING June 2nd, 4pm et. We will be giving an overview & assigning EVERY SCIENTIST IN AMERICA their marching orders. REGISTER: events.standupforscience.net/stand-up-for...

Emergency Science Meeting by Stand Up for Science

[discussing OMB-2026-0034?]

events.standupforscience.net

Very happy to share our paper, now published in Scientific Reports: “Development of a bioassay-guided genome mining approach for antifungal natural product discovery from pseudomonads” www.nature.com/articles/s41...

Development of a bioassay-guided genome mining approach for antifungal natural product discovery from pseudomonads - Scientific Reports

Scientific Reports - Development of a bioassay-guided genome mining approach for antifungal natural product discovery from pseudomonads

nature.com

they also would need to confront the idea that they are not the creative genius they may or may not purport themselves to be, and that they are in fact not serious in any way about their craft

Kelly@infinitefinite.blog · 4mo ago

if you use generative AI for anything you're not being forced to by your employer at this point in 2026, you are simply not a smart or serious person

Celebrating 3 awarded PhDs: congratulations to Dua, Elodie and Vitor!

I'm not sure that the biotech industry is in a great place... (Fyi, that is some desperate person's resume posted, not a job) 🧪🧬

In totally unsurprising news, Richard Dawkins is developing AI psychosis. Paywall bypass: archive.is/6RdK9

Generative AI, and LLMs in particular, seems to be causing a lot of people to lose their minds. Not in the sense of AI psychosis exactly, but a loss or abandonment of critical faculties. It’s happening everywhere, and those who are affected become unresponsive to rational argument.

If they were staging this, you all know for certain that they'd go full pro wrestling in the most inane and ludicrous possible way and have Trump single-handedly punching out half a dozen trans illegal immigrant Islamic attackers, and then defuse a bomb ...

I keep reading that AI is a F1 racecar, and the problem is that drivers aren't trained to drive it. But I'm worried about the F1 not having seatbelts, or really any safety features, we're offroading, and the wheels frequently and unpredictably come off the car. Why would I want training to do that?

Jeff Bezos has $222 billion. If he paid my wealth tax this year, we could fund insulin in America for everyone who needs it plus free school lunch for every kid in Texas—and have plenty of money left over. And Bezos would still have $215 billion dollars to spare.

Democratic senators: It's time to draw a line in the sand. A nominee for Attorney General will soon come before you. Make the confirmation process about releasing ALL of the Epstein files (without redactions) and prosecuting the Epstein class. (1/2)

We are pleased to share our new work in @pnas.org investigating the discovery, biosynthesis, and mechanistic investigation of a class of molecules we call spirocyclic beta-lactones! Skeetorial to follow. #natprod 🧪 www.pnas.org/doi/full/10....

saying you have nothing in common with the people in your obvious coalition is probably why you have not done a great job with organizing 😇

The rapamycin sTORy: 50-year journey from Easter Island to the frontiers of biology and medicine: Trends in Biochemical Sciences www.cell.com/trends/bioch... @cp-trendsbiochem.bsky.social

The rapamycin sTORy: 50-year journey from Easter Island to the frontiers of biology and medicine

Rapamycin, a ‘wonder drug’, was first reported 50 years ago in two papers in the Journal of Antibiotics, which described an antifungal compound purified from a bacterium isolated from soil samples col...

cell.com

Paul Hoskisson discusses the Streptomyces genus; the soil microbes behind many of our most important antibiotics and a cornerstone of the antibiotic revolution. Excerpt from Matters Microbial 125: Antibiotics, Streptomyces and Evolution @markowenmartin.bsky.social @paulhoskisson.bsky.social

1. Over the last few days I have received a set of queries about my research. The first one I thought was legitimate, and I was planning to answer when the second arrived, and then the third, from the same sender. Viewed together, they’re clearly LLM generated.

i’ve come to believe that we will never solve the literacy crisis by talking about reading as “watering the garden of your mind” or whatever. books are, and have always been, the favored medium of God’s purest freaks and degenerates. Reading isn’t a salad. If you’re doing it right, it’s a vice.