Thank you, Hungary!

Tonight in Budapest’s Heroes’ Square, a sea of young Hungarians—who’ve only ever known Orbán’s corrupt, suffocating regime—are packed together, singing, chanting, and daring to dream of freedom again.

Their hope is raw, their courage is real. The heart of Europe is beating in Budapest tonight. 🇭🇺❤️🇪🇺

Join us at the LS2 #Theory #across #Biology chalk talk symposium! 12 June 2026 in Bern, CH. @lifesciswitzerland.bsky.social

No movies that fail, no Mac to PC issues. Only the best ideas and exchange across biology from evolution and ecology to physics of life.

meetings.ls2.ch/theory-acros...

American and Israeli missiles hit Sharif University in Tehran tonight. Often called #Iran’s MIT, the institution has been home to some of the country’s best and brightest minds in science, technology, engineering, and mathematics since 1966. 1/2

It'll hopefully be a while before we get there. But then I imagine we do the same as pango did for SC2 and use double letters.

Something very different and cool for my lab. Sequencing a 4.4mb TB genome using the Artic-style PCR amplicon method with >5128 primers in two reactions 🤯

Enables culture-free WGS for TB!

journals.asm.org/doi/10.1128/...

#NieWieder
#WehretDenAnfängen
#GegenDasVergessen
#WeRemember

In remembrance of Peer Bork  | EMBL EMBL and its community are deeply saddened by the death of Peer Bork, the organisation’s Interim Director General. 

We mourn the passing of Peer Bork, EMBO Member since 2000: www.embl.org/news/embl-announcements/...

Fresh conflicts erupt around giant database for flu and COVID-19 sequences Critics say “autocratic” behavior by GISAID could hamper response to a future pandemic

“[P]utting data into GISAID is like dropping it in a mail slot in an unmarked building,” says @colincarlson.bsky.social. “It’s wonderful that there’s so much cool stuff in that building. It would be great if we knew who owned it, or who paid for it, or what they plan to do with it.”
#IDsky 🧪

Boris Shraiman points a physicist’s eye on biological quandaries Boris Shraiman is awarded the American Physical Society’s Max Delbrück Prize in Biological Physics.

Boris Shraiman points a physicist’s eye on biological quandaries news.ucsb.edu/2025/022264/... 🧪

🚨Preprint alert - this is a big one! We transfer the revolutionary power of TnSeq to bacteriophages.

Our HIDEN-SEQ links the "dark matter" genes of your favorite phage to any selectable phenotype, guiding the path from fun observations to molecular mechanisms.

A thread 1/8

Congratulations! Can't think of a better choice! 🎉

On Oct 1, 2025, GISAID informed us that they had ended updates to the flat file of SARS-CoV-2 genomic sequences and associated metadata that we had used to update Nextstrain analyses since Feb 2020. GISAID's stated rationale was that their "resources are limited". 1/5

Job alert🚨📢! Join us as Director of the SIB Centre for Pathogen Bioinformatics, on a topic where global collaboration is particularly important, in a highly stimulating environment. This is a research infrastructure leadership position.

Apply or spread the word!

apply.refline.ch/499599/0346/...

Apply for our Master of Science in Physics of Life – training in cutting-edge research at the interface of physics, mathematics, engineering and life sciences. Scholarships available. Application deadline: 30 November. More: www.biozentrum.unibas.ch/education/de...
@biozentrum.unibas.ch @unibas.ch

📣 Germany's close to reversing its opposition to mass surveillance & private message scanning, & backing the Chat Control bill. This could end private comms-& Signal-in the EU.

Time's short and they're counting on obscurity: please let German politicians know how horrifying their reversal would be.

Assistant/Associate Professor in Structural Biology, Biophysics or Biological Imaging

www.biozentrum.unibas.ch/open-positio...

#biozentrum #University #Basel #Professor #Structural #Biology #Biophysics #Biological #Imaging

HHMI adopts Plan U journals.plos.org/plosbiology/...

RealTrace: Uncovering biological dynamics hidden under measurement noise in time-lapse microscopy data One of the most powerful approaches for identifying the mechanisms underlying complex biological phenomena is not just to measure bulk populations, or even take single-cell snapshots, but to directly ...

What novel biological dynamics might be hiding under the measurement noise of your time-lapse fluorescence microscopy data?
Try our new RealTrace tool to find out!
Fantastic work by Bjoern Kscheschinski and others.
Tweetorial follows. 1/n
www.biorxiv.org/content/10.1...

The 16th Ebola Virus Disease Outbreak in Bulape Health Zone, Kasai, Democratic Republic of the Congo: A new spillover event from an unknown reservoir host Background The Democratic Republic of the Congo (DRC) is currently facing concurrent outbreaks including mpox, cholera and malaria (1-4). The Ministry of Public Health, DRC has declared the 16th Ebola...

Amid the concerning news of a new Ebola Zaire outbreak in DRC, teams on the ground have already managed to sample, sequence, and share data. This rapid turnaround is a testament to their commitment and capacity to respond.

Read more: virological.org/t/the-16th-e...

1/7

Efficient sequence alignment against millions of prokaryotic genomes with LexicMap - Nature Biotechnology LexicMap uses a fixed set of probes to efficiently query gene sequences for fast and low-memory alignment.

Sometimes you meet absolutely incredible bioinfo-magicians.
It was a huge privilege when @shenwei356.bsky.social
joined our group for a year on an @embl.org sabbatical.
While here, he developed a new way of aligning to
millions of bacteria, called LexicMap 1/n
www.nature.com/articles/s41...

Join us for an exciting #BiozentrumDiscovery lecture!

Prof. Tami Lieberman from @mit.edu will speak about the dynamic selective landscape of human microbiomes. Her lab studies microbial evolution in real time, with a focus on mutations occurring within individual human microbiomes.

The 16th Ebola Virus Disease Outbreak in Bulape Health Zone, Kasai, Democratic Republic of the Congo: A new spillover event from an unknown reservoir host Background The Democratic Republic of the Congo (DRC) is currently facing concurrent outbreaks including mpox, cholera and malaria (1-4). The Ministry of Public Health, DRC has declared the 16th Ebola...

Sequence data from the new Ebola outbreak in DRC suggests it is indeed a new spillover.

And just incredible to see the virus sequenced and the data publicly shared less than 24 hours after confirmation of the outbreak.
#IDsky 🧪

virological.org/t/the-16th-e...

Congratulations!!

Super excited that our group will be supported by an ERC Starting Grant!

In project "InfoFate" we will study how cells use information in dynamical, neighborhood & mechanical signals to make decisions.

We'll have PhD and Postdoc positions available, please get in touch if interested!

An image of a birthday cake with scientific doodles around it, 9 colourful candles, and the Pathoplexus logo in the middle, with the words 'Happy 1 year'

🗓 Pathoplexus turns ONE! 🎂🎉

In the past year we’ve grown from 4 pathogens to a truly global, community-driven platform for transparent, equitable & impactful pathogen sequence sharing.
📰 Read the full update: pathoplexus.org/news/2025-08...

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The actin cortex acts as a mechanical memory of morphology in confined migrating cells - Nature Physics Cells often navigate through confined spaces. Now it is shown that cells retain a mechanical memory of previous confinement events, which makes them more efficient at migrating through narrow microenv...

🤔 Can migrating cells 'remember' their past trajectories?

In collab w/ @sgabriele.bsky.social & @kyohalie.bsky.social, we address this question:

Confined cells undergo geometry-sensitive morphology switches, and these switches depend on the past migration history!

www.nature.com/articles/s41...

"little linkage within subgroups" means that mutations occur pretty independently of each other on different genetic backgrounds within the group. But mutations differentiating the larger subgroups tend to co-occur irrespective of their separation along the chromosome.

Introduction to Pangraph | Pangraph docs Pangraph is currently under heavy development. Bugs and crashes are to be expected.

Analyzing these data as pangenome graphs was very helpful to disentangle contributions of homologous recombination and accessory genome evolution at different scales. I hope this will continue to help us to shed light on the dynamic world of bacteria and phages.

[6/6]

docs.pangraph.org

This wide-spread homologous recombination seems to happen despite often substantial divergence >5% between genomes. But sometimes populations seem to fragment into groups with much less exchange – whether this is driven by geographic separation, ecological factors, or divergence is unclear.

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