Jonathan Jagodnik
@jagodnikscience.bsky.social
RNA! RNA, everywhere! (Same could be said about bacteria...)
Post-doc at RNA control of gene expression lab, Microbial Gene Expression, IBPC - CNRS.
Post-doc at RNA control of gene expression lab, Microbial Gene Expression, IBPC - CNRS.
Pinned
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
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
(Thread, 1/6)
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
(Thread, 1/6)
Reposted by Jonathan Jagodnik
BREAKING: Friday night massacre underway at CDC. Doznes of "disease detectives," high-level scientists, entire Washington staff and editors of the MMWR (Morbidity and Mortality Weekly Report) have all been RIFed and received the following notice:
October 11, 2025 at 2:10 AM
BREAKING: Friday night massacre underway at CDC. Doznes of "disease detectives," high-level scientists, entire Washington staff and editors of the MMWR (Morbidity and Mortality Weekly Report) have all been RIFed and received the following notice:
Reposted by Jonathan Jagodnik
Open position to work on Type IX secretion (#T9SS) in our lab, in collaboration withe the group of Eric Reynolds at the Dental School of the University of Melbourne. Please spread the word, and forward to anyone potentially interested ! Apply here:
emploi.cnrs.fr/Offres/Docto...
emploi.cnrs.fr/Offres/Docto...
Portail Emploi CNRS - Offre d'emploi - Thèse en Microbiologie-Biochimie (H/F)
emploi.cnrs.fr
October 9, 2025 at 12:18 PM
Open position to work on Type IX secretion (#T9SS) in our lab, in collaboration withe the group of Eric Reynolds at the Dental School of the University of Melbourne. Please spread the word, and forward to anyone potentially interested ! Apply here:
emploi.cnrs.fr/Offres/Docto...
emploi.cnrs.fr/Offres/Docto...
Reposted by Jonathan Jagodnik
Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.
October 8, 2025 at 9:45 PM
Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.
Reposted by Jonathan Jagodnik
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!
September 15, 2025 at 5:26 PM
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!
Reposted by Jonathan Jagodnik
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
September 15, 2025 at 11:41 AM
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
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!!
Tired of your somewhat easy life doing genetics in E.coli? Make it even way easier with Maxence's method!!
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/...
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
September 10, 2025 at 1:28 PM
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!!
Tired of your somewhat easy life doing genetics in E.coli? Make it even way easier with Maxence's method!!
Reposted by Jonathan Jagodnik
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
September 6, 2025 at 9:35 AM
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!
Reposted by Jonathan Jagodnik
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
September 4, 2025 at 10:25 AM
Exciting FULL PROFESSORSHIP at the Vienna BioCenter - Molecular Mechanisms of Disease Mechanisms: www.maxperutzlabs.ac.at/news/open-po... Come be our colleague!
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!
September 4, 2025 at 11:05 AM
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!
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.
September 1, 2025 at 7:57 PM
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.
Reposted by Jonathan Jagodnik
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!
www.nature.com/naturecareer...
Please repost!
August 28, 2025 at 6:34 AM
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!
www.nature.com/naturecareer...
Please repost!
Reposted by Jonathan Jagodnik
🚨 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...
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...
August 24, 2025 at 6:38 AM
🚨 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...
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...
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.!
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
June 27, 2025 at 1:05 PM
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.!
Congrats to colleagues in Strasburg univ.!
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
June 20, 2025 at 6:52 AM
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/...
Check this out : the mechanism of Rae1 cleavage upstream of stalled ribosomes in B.subtilis!
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.
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.
The endoribonuclease Rae1 from Bacillus subtilis cleaves mRNA upstream of stalled ribosomes https://www.biorxiv.org/content/10.1101/2025.06.04.657793v1
June 6, 2025 at 7:17 AM
Check this out : the mechanism of Rae1 cleavage upstream of stalled ribosomes in B.subtilis!
Reposted by Jonathan Jagodnik
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
May 21, 2025 at 4:19 PM
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...
Reposted by Jonathan Jagodnik
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.
NIH stops development of HIV vaccine, terminates grants to consortia, including at Duke University.
www.science.org/content/arti...
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
May 31, 2025 at 1:02 AM
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.
Reposted by Jonathan Jagodnik
Ribosomes modulate transcriptome abundance via generalized frameshift and out-of-frame mRNA decay
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
May 17, 2025 at 3:19 PM
Ribosomes modulate transcriptome abundance via generalized frameshift and out-of-frame mRNA decay
Groundbreaking?
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...
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...
May 16, 2025 at 6:42 AM
Groundbreaking?
Reposted by Jonathan Jagodnik
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...
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
May 8, 2025 at 11:32 AM
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...
academic.oup.com/nargab/artic...
Reposted by Jonathan Jagodnik
Swarm-seq Reveals Functional Divergence in CsrA Homologs Across Bacteria. https://www.biorxiv.org/content/10.1101/2025.05.05.652322v1
May 7, 2025 at 5:20 AM
Swarm-seq Reveals Functional Divergence in CsrA Homologs Across Bacteria. https://www.biorxiv.org/content/10.1101/2025.05.05.652322v1
Reposted by Jonathan Jagodnik
Bonjour, un poste d´IE (biochimie/BM) en mobilité interne (NOEMI) est disponible au Laboratoire de Biologie Structurale de la Cellule (bioc.ip-paris.fr), École polytechnique, Palaiseau.
Rejoignez-nous!!!
emploi.cnrs.fr/Offres/MOBIN...
Merci de faire circuler l´information!
Rejoignez-nous!!!
emploi.cnrs.fr/Offres/MOBIN...
Merci de faire circuler l´information!
May 5, 2025 at 8:31 AM
Bonjour, un poste d´IE (biochimie/BM) en mobilité interne (NOEMI) est disponible au Laboratoire de Biologie Structurale de la Cellule (bioc.ip-paris.fr), École polytechnique, Palaiseau.
Rejoignez-nous!!!
emploi.cnrs.fr/Offres/MOBIN...
Merci de faire circuler l´information!
Rejoignez-nous!!!
emploi.cnrs.fr/Offres/MOBIN...
Merci de faire circuler l´information!
Reposted by Jonathan Jagodnik
🧬🧫🦠 @science.org Bacterial reverse transcriptase synthesizes long poly-A–rich cDNA for antiphage defense | Science www.science.org/doi/10.1126/... #microbiology #bacteriophage #antiphage #immunity #DNA #RNAsky #RT #Cryo-EM #DRT9
May 2, 2025 at 9:02 PM
🧬🧫🦠 @science.org Bacterial reverse transcriptase synthesizes long poly-A–rich cDNA for antiphage defense | Science www.science.org/doi/10.1126/... #microbiology #bacteriophage #antiphage #immunity #DNA #RNAsky #RT #Cryo-EM #DRT9
Reposted by Jonathan Jagodnik
I got hit by some rather sudden and extreme financial hardship so if anyone is in need of remote wetlab contract research, strictly BSL1, do let me know. Currently scrambling for gigs.
Plant, Bacterial, Archaeal Non-model Bioeng
Custom Lab Hardware
Turn Key Genetic Design
Please repost for reach 💚
Plant, Bacterial, Archaeal Non-model Bioeng
Custom Lab Hardware
Turn Key Genetic Design
Please repost for reach 💚
May 2, 2025 at 2:39 PM
I got hit by some rather sudden and extreme financial hardship so if anyone is in need of remote wetlab contract research, strictly BSL1, do let me know. Currently scrambling for gigs.
Plant, Bacterial, Archaeal Non-model Bioeng
Custom Lab Hardware
Turn Key Genetic Design
Please repost for reach 💚
Plant, Bacterial, Archaeal Non-model Bioeng
Custom Lab Hardware
Turn Key Genetic Design
Please repost for reach 💚
Reposted by Jonathan Jagodnik
My dept in London at Imperial (Bioengineering) is recruiting a group leader at Professor level 🧑🎓 Please RT. It's a great place with world-class expertise in all sorts of biomedical & biological engineering topics like synthetic biology. It's also not in the USA. www.imperial.ac.uk/jobs/search-...
May 2, 2025 at 3:20 PM
My dept in London at Imperial (Bioengineering) is recruiting a group leader at Professor level 🧑🎓 Please RT. It's a great place with world-class expertise in all sorts of biomedical & biological engineering topics like synthetic biology. It's also not in the USA. www.imperial.ac.uk/jobs/search-...