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Jonathan Jagodnik

@jagodnikscience.bsky.social

100 followers 160 following 34 posts

RNA! RNA, everywhere! (Same could be said about bacteria...) Post-doc at RNA control of gene expression lab, Microbial Gene Expression, IBPC - CNRS.

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Jonathan Jagodnik @jagodnikscience.bsky.social · Apr 6

I am thrilled to share this new preprint from our lab!
We find (>800!) 30S binding sites in hundreds of 5'UTRs, but also new dynamic steps of translation initiation.
www.biorxiv.org/content/10.1...
Congrats to all co-authors at the RNA control of gene expression lab, IBPC CNRS
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30S-seq redefines the bacterial Ribosome Binding Site

The translation initiation step is rate limiting for the efficiency of gene expression in all organisms. However, the mechanism of ribosome recruitment to mRNA start sites strikingly differs between e...

www.biorxiv.org

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Reposted by Jonathan Jagodnik

Sofya Garushyants @garushyants.bsky.social · 23d

hey bluesky 👋 visa hurdles mean I’m looking for opportunities outside the US. I’m a computational biologist (bacterial + phage genomics, postdoc in Koonin’s group @ NIH). I am interested in teaming up on funding apps. reach out if this resonates!

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Reposted by Jonathan Jagodnik

Collège des Sociétés savantes académiques de France @societessavantes.bsky.social · 23d

Communiqué de presse : financement de la recherche publique : la communauté scientifique alerte sur un système à bout de souffle. #veilleESR, @info.gouv.fr @agencerecherche.bsky.social @cnrs.fr @franceuniversites.bsky.social @inserm.fr @inrae-france.bsky.social @enseignementsup-recherche.gouv.fr

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Jonathan Jagodnik @jagodnikscience.bsky.social · 28d

Congrats to @mlejars.bsky.social for this really cool publication!

Tired of your somewhat easy life doing genetics in E.coli? Make it even way easier with Maxence's method!!

Maxence Lejars @mlejars.bsky.social · 28d

Happy to share the published version of our genetic toolbox, EASY-edit, for simple, flexible and efficient targeted editing in E. coli!

Feel free to to try it, we can send strains and plasmids!

academic.oup.com/nar/article/...

EASY-edit: a toolbox for high-throughput single-step custom genetic editing in bacteria

Abstract. Targeted gene editing can be achieved using CRISPR–Cas9-assisted recombineering. However, high-efficiency editing requires careful optimization f

academic.oup.com

Jonathan Jagodnik @jagodnikscience.bsky.social · Sep 7

Truely beautiful work!

Reposted by Jonathan Jagodnik

Zeynep Baharoglu @zeynepbaharoglu.bsky.social · Sep 6

So excited our antibiotic potentiation story is out 🤩 Led by the extraordinary @manonlang.bsky.social with @fox-science.bsky.social & @amazeld.bsky.social +amazing collaborators @immunobladder.bsky.social @imaneelmeouche.bsky.social 🦠 We believe it can make a difference in #AMR infections!

Uridine as a potentiator of aminoglycosides through activation of carbohydrate transporters

Uridine boosts aminoglycoside treatment efficiency against antibiotic-susceptible as well as antibiotic-resistant E. coli strains.

www.science.org

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Reposted by Jonathan Jagodnik

Anna Obenauf @obenaufa.bsky.social · Sep 4

Exciting FULL PROFESSORSHIP at the Vienna BioCenter - Molecular Mechanisms of Disease Mechanisms: www.maxperutzlabs.ac.at/news/open-po... Come be our colleague!

Full Professorship in Molecular Mechanisms of Disease

The Max Perutz Labs - one of Europe’s leading institutes for basic research in the life sciences - invite applications for a Full Professorship in Molecular Mechanisms of Disease. We are seeking outst...

www.maxperutzlabs.ac.at

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Jonathan Jagodnik @jagodnikscience.bsky.social · Sep 4

Many congrats to Ninon Christol from our Microbial Gene Expression research unit, IBPC CNRS, as well as to @maximiliankohl.bsky.social from IBMC at Univ. Strasbourg, for their amazing poster prizes!

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Jonathan Jagodnik @jagodnikscience.bsky.social · Sep 2

I am glad you enjoyed it!

Jonathan Jagodnik @jagodnikscience.bsky.social · Sep 2

Thanks a lot!

Jonathan Jagodnik @jagodnikscience.bsky.social · Sep 1

Happy to have presented my work at the #microbialRNAs meeting today, with a very active discussion and a beautiful session! Looking forward to more science in the next few days in Strasbourg.

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Reposted by Jonathan Jagodnik

Daniel Durocher @durocher1.bsky.social · Aug 28

JOB ALERT 🚨 We are hiring TWO principal investigators in cell, molecular, systems, or chemical biology in Toronto, Canada at @sinaihealth.bsky.social. We provide a generous startup, fully funded salary and academic appointment at U of Toronto.

www.nature.com/naturecareer...

Please repost!

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Reposted by Jonathan Jagodnik

David Lalaouna @davidlalaouna.bsky.social · Aug 24

🚨 New Preprint Alert 🚨

Our latest work, A Zur-dependent regulatory RNA involved in maintaining zinc homeostasis in Staphylococcus aureus, is now live on bioRxiv! 🧬🦠📄

Check it out here: www.biorxiv.org/content/10.1...

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Jonathan Jagodnik @jagodnikscience.bsky.social · Jul 2

Of course, it is a beautiful piece of science!

Jonathan Jagodnik @jagodnikscience.bsky.social · Jun 27

Beautiful paper on translation start sites and extented SD motifs in Staph. aureus. www.biorxiv.org/content/10.1...
Congrats to colleagues in Strasburg univ.!

Extended Shine-Dalgarno motifs govern translation initiation in Staphylococcus aureus

Regulation of translation initiation is central to bacterial adaptation, but species-specific mechanisms remain poorly understood. We present high-resolution mapping of translation start sites in S. a...

www.biorxiv.org

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Jonathan Jagodnik @jagodnikscience.bsky.social · Jun 20

What a fantastic achievement! Carine Tisné is rewarded the CNRS Silver medal for her structural studies of tRNA modification. We are very proud of her, at the Microbial Gene Expression research department, IBPC! www.insb.cnrs.fr/fr/personne/...

Carine Tisné

www.insb.cnrs.fr

Jonathan Jagodnik @jagodnikscience.bsky.social · Jun 6

Check this out : the mechanism of Rae1 cleavage upstream of stalled ribosomes in B.subtilis!

Alexandre D'Halluin @alexandredhalluin.bsky.social · Jun 6

New preprint from our lab !

We have identify a new target of the endoribonuclease Rae1, flyY, and found that this RNase strictly cleaves its known targets 12nt upstream of stalled ribosomes, at their tailed end.

bioRxiv Molecular Biology @biorxiv-molbio.bsky.social · Jun 5

The endoribonuclease Rae1 from Bacillus subtilis cleaves mRNA upstream of stalled ribosomes https://www.biorxiv.org/content/10.1101/2025.06.04.657793v1

Reposted by Jonathan Jagodnik

Zeynep Baharoglu @zeynepbaharoglu.bsky.social · May 21

Marie Curie fellowship, post-doc hosting oppotunity in my lab. MSCA Post-doctoral Fellowship at IBPC Paris on RNA modifications in bacteria (FRANCE) 🦠💫 euraxess.ec.europa.eu/jobs/hosting...

euraxess.ec.europa.eu

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Reposted by Jonathan Jagodnik

J. David Jentsch 🏳️‍🌈 @jdavidjentsch.bsky.social · May 31

This is a devastating outcome for those who have spent their careers trying to stop HIV/AIDS and for all the activists who demanded the world take this work seriously.

Dr. Sven-Eric Jordt #TobRegSky @sejordt.bsky.social · May 31

NIH stops development of HIV vaccine, terminates grants to consortia, including at Duke University.

www.science.org/content/arti...

‘Devasting.’ NIH cancels future funding plans for HIV vaccine consortia

Researchers decry agency’s decision just as new leads reinvigorate search for long-sought vaccine

www.science.org

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Jonathan Jagodnik @jagodnikscience.bsky.social · May 26

We have P1 for transductions but I'm assuming that's the most used/spread out one in labs. I'll look into old fridge relics bot no promesses!

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Reposted by Jonathan Jagodnik

Molecular Cell @cp-molcell.bsky.social · May 17

Ribosomes modulate transcriptome abundance via generalized frameshift and out-of-frame mRNA decay

Zhang et al. identify a regulatory mechanism for how cells adapt to nutrient scarcity through widespread −1 ribosomal frameshifts, culminating in accelerated mRNA decay. This process, dependent on codon optimality and conserved across species, establishes direct feedback coupling the translation of new proteins with the stability of the mRNA that encodes for them.

dlvr.it

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Jonathan Jagodnik @jagodnikscience.bsky.social · May 16

Groundbreaking?

Sternberg Lab @sternberglab.bsky.social · May 15

1/10 Today in @science.org in collaboration with
the Liu group we report the development of a laboratory-evolved CRISPR-associated transposase (evoCAST) that supports therapeutically relevant levels of RNA-programmable gene insertion in human cells. drive.google.com/file/d/1I-Ub...

Reposted by Jonathan Jagodnik

Liam Faller @liamfaller.bsky.social · May 8

New paper from the lab! Want to know if there is a difference in ribosome collisions between your samples? We show that you can detect this in the rRNA reads in your ribosome profiling data.

academic.oup.com/nargab/artic...

Detecting ribosome collisions with differential rRNA fragment analysis in ribosome profiling data

Abstract. It has become clear in recent years that ribosomes regularly stall during translation. Such translation impairment has many causes, including exp

academic.oup.com

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Jonathan Jagodnik @jagodnikscience.bsky.social · May 7

🫣😒

Reposted by Jonathan Jagodnik

bioRxiv Microbiology @biorxiv-microbiol.bsky.social · May 7

Swarm-seq Reveals Functional Divergence in CsrA Homologs Across Bacteria. https://www.biorxiv.org/content/10.1101/2025.05.05.652322v1

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Jonathan Jagodnik @jagodnikscience.bsky.social · May 6

Not just any pop-corn. The big, master pop-corn hiding in there, extra tasty.