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Xavier Charpentier

@labxc.bsky.social
706 followers 401 following 47 posts

Group leader. HGT in bacterial pathogens. Acinetobacter, Legionella. Natural transformation. AMR. MGEs. Centre International de Recherche en Infectiologie

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Reposted by Xavier Charpentier
Vaughn Cooper @vscooper.micropopbio.org · 16/09/2026
Authors!🚨 While you scramble for scarce $ 🤔 “Springer Nature reports revenue growth of 6.2%..and adjusted operating profit growth of 7.7%. They reported even more stunning submission growth of 30% and published article growth of 13%.” Publishing in society journals helps YOU not them👇🏻. Pass it on.
static.klipy.com
Man Lying on a Pile of Money
ALT: Man Lying on a Pile of Money
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François Rousset @francoisrousset.bsky.social · 08/09/2026
🚨 We are excited to share the first preprint of our lab ! We discovered an NADase enzymatic domain in bacterial immunity and in the human protein TEP1. www.biorxiv.org/content/10.6...
biorxiv.org
A widespread NADase domain links bacterial immunity with human TEP1
Recent discoveries on bacterial immunity have revealed that several protein domains involved in anti-phage defense are conserved in eukaryotes, such as SIRim, TIR, PNP and gasdermin. Bacterial immune ...
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Rémi Tuffet @remituffet.bsky.social · 31/08/2026
Our new paper is out in @PLOS Biology! 🎉 “Ecological theory sheds light on plasmid diversity and dynamics” 🔗 doi.org/10.1371/jour... More on the main findings in the next posts 👇
doi.org
Ecological theory sheds light on plasmid diversity and dynamics
Bacterial genomes are remarkably dynamic, shaped by horizontal transfer of plasmids that follow evolutionary trajectories of their own. This study uses eco-evolutionary perspectives to reveal how the ...
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Craig Kaplan @triggerloop.bsky.social · 22/07/2026
Some bacteria use the CRISPR/Cas systems as transcriptional repressors of other anti-phage systems, such that when CRISPR interfered with, gene expression of repressed anti-phage systems goes up www.nature.com/articles/s41...
nature.com
CRISPR–Cas regulates expression of embedded anti-phage defence systems - Nature
CRISPR–Cas systems transcriptionally tune diverse innate defences using CRISPR RNA-like guides to balance antiviral protection with fitness, and hyperactivate these defences when compromised, establis...
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Aude Bernheim @audeber.bsky.social · 21/07/2026
Out @cp-cellhostmicrobe.bsky.social, natural products meet bacterial immunity! We used genomics to identify lanthivirins: a family of >2,000 lanthipeptide BGCs that protect Actinobacteria against phages. Led by @hshomar.bsky.social & @mariegllm.bsky.social www.sciencedirect.com/science/arti...
sciencedirect.com
A family of lanthipeptides with anti-phage function
Bacteria produce natural products to adapt to their environments, with phage interactions as major ecological and evolutionary drivers. While some nat…
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Alex Crits-Christoph @acritschristoph.bsky.social · 13/07/2026
There are a few parts of this preprint that don't add up in my opinion. 1. They find 10% of papers change their primary conclusions from preprint to publication. But if the primary conclusion of a paper is rebutted in peer review, isn't it a common+appropriate outcome for it to not be published?
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Eugen Pfeifer @eugenpfeifer.bsky.social · 10/07/2026
We are looking for a motivated PhD student in phage genomics! Please find the details attached. Application deadline 24/07. Don't hesitate to spread the word!
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Sorek Lab @soreklab.bsky.social · 09/07/2026
Our paper out in Science today: The Metis defense system senses molecular byproducts released when a phage degrades the bacterial genome, and then prevents replication of the phage in the infected cell Congratulations @ostermanilya.bsky.social and co-authors!
science.org
Bacteria sense virus-induced genome degradation via methylated mononucleotides
Phages often degrade the genome of their bacterial host to individual nucleotides. Here we describe Metis, a bacterial defense system that directly senses phage-mediated host genome degradation. Metis...
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Xavier Charpentier @labxc.bsky.social · 07/07/2026
#microsky New preprint from the lab! Widespread immune systems protect bacteria against conjugative plasmids www.biorxiv.org/content/10.6... Kudos to the extremely talented lead author Ludovic Poiré! Key contributions by @francoisrousset.bsky.social and also help from C. Lesterlin/TacC lab. 🧵⬇️
biorxiv.org
Widespread immune systems protect bacteria against conjugative plasmids
Conjugative plasmids are a class of mobile genetic elements capable of efficient transfer between bacterial cells. Although they can introduce beneficial traits such as antibiotic resistance to recipi...
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Simon Roux @simrouxvirus.bsky.social · 29/06/2026
🚨New paper alert 🚨 Here we tried to leverage an (incredible) metagenome time-series to better understand MGE diversity and activity in soil across decade(s). @scbagby.bsky.social has an amazing thread about this work with all the details - bsky.app/profile/scba...
nature.com
Mobile genetic elements shape microbial diversity and functions in thawing permafrost soils - Nature Microbiology
An 8-year soil meta-omic time series shows how mobile genetic elements shape permafrost microbial diversity and impact a range of functions, including carbon and nutrient cycling.
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Cascales Lab @cascaleslab.bsky.social · 18/06/2026
Extension of the deadline for latecomers. Register to the Secretion Days in Marseille !
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Cress Lab @cresslab.bsky.social · 30/04/2026
Our lab is proud to present our latest work harnessing Bridge Recombinase for genome-scale editing in diverse bacteria, microbiome editing, and programmable horizontal gene transfer.
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Kenneth Loi @kenjmloi.bsky.social · 27/04/2026
Excited to share our discovery of a new programmable RNA-guided DNA-targeting system hiding inside bacteriophages that predates CRISPR. We call it VIPR (Viral Interference Programmable Repeat), and it uses an entirely new logic to find its targets. Thread + link below.
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Rémi Fronzes @fronzeslab.bsky.social · 20/04/2026
ComEC structure is out!! 😍 Congratulations to the authors! That’s not an easy one. We have been trying for years to get that structure… We failed and gave up.
science.org
Structural basis for DNA processing and membrane translocation by ComEC in natural transformation
Natural transformation is one of the major pathways of horizontal gene transfer in bacteria, enabling the acquisition of extracellular DNA and its integration into the host genome. ComEC is a membrane...
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Melanie Blokesch @mblokesch.bsky.social · 10/04/2026
Excited to share our new paper out today in @science.org 🎉 We show that HGT via natural competence drives diversification of chromosomal integrons in V. cholerae 🤩 Below a 🧵 on key findings incl. background on natural competence in V. cholerae 1/ #microsky #phagesky www.science.org/doi/10.1126/...
science.org
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Aude Bernheim @audeber.bsky.social · 02/04/2026
How diverse is bacterial immunity ? We report in @science.org how language models allowed us to predict 2.4M antiphage proteins spanning >23K novel potential systems. 👏 @emordret.bsky.social, @alexhv.bsky.social & al doi.org/10.1126/scie... Explore them here defensefinder.mdmlab.fr/wiki/refseq_...
science.org
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Filipa Trigo da Roza @filipatr.bsky.social · 20/03/2026
New preprint alert!!! 🚀🤓 We are very happy to finally share this with the world — the result of seven years of work and a new tool to study integrons and discover new functions encoded in these bacterial platforms. If you want to know more, here is a thread 🧵 www.biorxiv.org/content/10.6...
biorxiv.org
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Ákos T Kovács @evolvedbiofilm.bsky.social · 21/03/2026
Reversible DNA condensation drives natural transformation @natcomms.nature.com from Keith Mickolajczyk, Matthew Neiditch, and David Dubnau www.nature.com/articles/s41...
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Eduardo Rocha @epcrocha.bsky.social · 17/03/2026
Horizontal gene transfer is often depicted as a process distributing pre-existing functions to novel genetic backgrounds. Yet HGT can also increase the rate of functional innovation after transfer. Here's a brief review on the topic: ecoevorxiv.org/repository/v... #evosky #microsky
ecoevorxiv.org
From Trading Genes to Crafting New Tricks: How Horizontal Gene Transfer Potentiates the Emergence of Novel Functions
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Alvaro San Millan @sanmillan.bsky.social · 13/03/2026
Final version of our last paper is out! www.nature.com/articles/s41...
nature.com
Plasmids promote antimicrobial resistance through insertion sequence-mediated gene inactivation - Nature Microbiology
Inactivation of chromosomal genes through plasmid-encoded IS elements is an extended mechanism of antimicrobial resistance evolution in bacteria.
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Aritz Roa-Eguiara @aritz-roa.bsky.social · 07/03/2026
🚨Preprint! Happy to share the research from my PhD “Genome delivery of a contractile tailed phage and its superinfection exclusion mechanism”. We use cryoEM to study the genome ejection of the phage T4, revealing how the tape measure protein regulates the process. www.biorxiv.org/content/10.6...
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Eduardo Rocha @epcrocha.bsky.social · 03/03/2026
Fantastic collaboration w/ @dbikard.bsky.social @audeber.bsky.social @rayanchikhi.bsky.social labs led by @jmouradesousa.bsky.social : We assessed the rates of variation of anti-phage systems in P4-like satellites and P2 helper phages. Quick conclusion: Huge variation! We focus on 4 key questions/5
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Jorge Moura de Sousa @jmouradesousa.bsky.social · 02/03/2026
➡️ preprint from the lab! Bacteria have loads of antiviral defences in their mobile genetic elements (MGEs). So when MGEs move between bacteria, the defences move with them, generating a fast turnover of defences in bacteria. But what about the antiviral defence turnover in the MGEs themselves? 🤔 🧵👇
biorxiv.org
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CIRI Lyon @ciri-lyon.bsky.social · 29/01/2026
Le CIRI recrute un Maître ou une Maîtresse de conférences en Microbiologie médicale Plus d'informations : ciri.ens-lyon.fr/MCU-microbio...
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MMSB-Lyon @mmsb-lyon.bsky.social · 29/01/2026
📢 Recrutement d’un(e) Maître(sses) de conférence en Biochimie générale, spécialité bactériologie moléculaire à MMSB 🔬Recherche *Immunité anti-phages *Réponse au stress, modulation de la croissance bactérienne ✉️ christophe.grangeasse@cnrs.fr 📚Enseignement : Université Lyon I ✉️ patrice.gouet@ibcp.fr
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Xavier Charpentier @labxc.bsky.social · 16/01/2026
#microsky Massive update of preprint with @polardlab.bsky.social! Bacteria have evolved two systems to recombine extracellular DNA www.biorxiv.org/content/10.1... Kudos to lead authors Léo Hardy, Violette Morales and Clothilde Rousseau, and to outstanding Dalia's lab and @epcrocha.bsky.social 🧵⬇️
biorxiv.org
Two D-loop resolution systems enable natural genetic transformation in bacteria
Natural transformation is a widespread mechanism driving genetic exchanges in bacteria. It proceeds by the capture and internalization of exogenous DNA in linear single strands, ultimately integrated in the genome by homologous recombination. It is unknown how the RecA-directed D-loop intermediate of this dedicated recombination pathway is processed. We report that resolution of the transformation D-loop depends on two endonucleases of opposing phylogenetic distribution in bacteria. One is YraN, which has co-evolved and interacts with the ComM helicase, known to extend DNA recombination at the transformation D-loop. The other is CoiA, which is restricted to the Bacillota. CoiA is shown to be a resolvase of the transformation D-loop, extended by the RadA helicase in these species. We demonstrate that both YraN and CoiA act synergistically with their cognate helicases. These findings reveal that bacteria have evolved two helicase/nuclease pairs for the maturation and recombination extension of the transformation D-loop. ### Competing Interest Statement The authors have declared no competing interest. Agence Nationale de la Recherche, https://ror.org/00rbzpz17, ANR-20-CE12-0004, ANR-10-BLAN-1331, ANR-17-CE13-0031, ANR-22-CE44-0044, ANR-10-LABX-62-IBEID, PIA/ANR-16-CONV-0005 Fondation pour la Recherche Médicale, https://ror.org/04w6kn183, FDT202001010890 European Union's Horizon research and innovation programme. Marie Skłodowska-Curie Postdoctoral Fellowships, 101208987 National Institute of Health, USA, R35GM128674
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Olaya Rendueles @olayarendueles.bsky.social · 15/01/2026
My team at @cbitoulouse.bsky.social is recruiting a postdoc #bioinformatics with solid experience in metagenomic analyses. Interest in evolution, ecology & MGEs is important. The offer stands until the perfect candidate is found, and it could be you 🫵 🔁 🙏 #microSky #phagesky #UTIsky @cnrs.fr
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Xavier Charpentier @labxc.bsky.social · 13/01/2026
Une opportunité unique de former des étudiants talentueux à la biologie des bactéries à l'ENS Lyon et mener des recherches sur les phages, l'immunité bactérienne, le transfert génétique horizontal (HGT) et/ou les éléments génétiques mobiles au sein du département de bactériologie du CIRI.
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Calum H. G. Johnston @chgjohnston.bsky.social · 26/11/2025
Pleased to share our recent article in PNAS - a collaboration with @jessicaandreani.bsky.social & Pablo Radicella, with important roles played by many members of each team. A tripartite protein complex promotes DNA transport during natural transformation in Firmicutes www.pnas.org/doi/10.1073/...
pnas.org
A tripartite protein complex promotes DNA transport during natural transformation in Firmicutes | PNAS
Natural genetic transformation is a conserved mechanism of bacterial horizontal gene transfer, which is directed entirely by the recipient cell and...
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Jamie Hall @jpjhall.bsky.social · 18/11/2025
🚨#PhD studentship opportunity! Plasmids provide bacteria with antimicrobial resistance, but do they have more fundamental effects on behaviour? 🧫🦠💫🧟‍♂️ Apply for a 4y funded MRC DiMeN position with me and Jamie Wheeler @livuni-ives.bsky.social www.findaphd.com/phds/project...
findaphd.com
MRC DiMeN Doctoral Training Partnership: Resistant zombies: how drug-resistance plasmids manipulate the behaviour of the opportunistic pathogen Pseudomonas aeruginosa at University of Liverpool on Fin...
PhD Project - MRC DiMeN Doctoral Training Partnership: Resistant zombies: how drug-resistance plasmids manipulate the behaviour of the opportunistic pathogen Pseudomonas aeruginosa at University of Li...
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Kevin Debatisse @kdebatisse.bsky.social · 17/11/2025
Our new paper is out in @narjournal.bsky.social We show that natural transformation enables bacteria to shuffle integron cassettes, boosting their phenotypic diversity. academic.oup.com/nar/article/... 1/5
academic.oup.com
Bacterial natural transformation drives cassette shuffling and simplifies recombination in chromosomal integrons
Abstract. Integrons act as biobanks of gene cassettes conferring functions crucial for bacterial defense, including protection against phages and antibioti
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CNRS Biologie @cnrsbiologie.bsky.social · 12/11/2025
#ResultatScientifique 🔎 Certains gènes antiviraux humains partagent des défenses communes avec les bactéries, révélant une convergence évolutive surprenante 🧬 ✍️ Alexandre Legrand et @lucievirevolte.bsky.social 📕 Nature Ecology and Evolution buff.ly/Su0EdiU
insb.cnrs.fr
Défenses immunitaires : une invention répétée au cours de l’évolution
Dans une étude publiée dans Nature Ecology and Evolution, des scientifiques montrent que les gènes SAMD9 et SAMD9L, a
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Vivek Mutalik @vivekmutalik.bsky.social · 05/11/2025
#phahe #phagesky www.biorxiv.org/content/10.1...
biorxiv.org
A membrane-bound nuclease directly cleaves phage DNA during genome injection
From mammals to bacteria, the direct recognition and cleavage of viral nucleic acids is a potent defense strategy against viral infection, but it requires mechanisms for distinguishing self from non-s...
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Vivek Mutalik @vivekmutalik.bsky.social · 08/09/2025
The ecology and evolution of bacterial immune systems'. #phage #phagesky A bunch of interesting reviews royalsocietypublishing.org/doi/10.1098/...
royalsocietypublishing.org
Preface: the ecology and evolution of bacterial immune systems | Philosophical Transactions of the Royal Society B: Biological Sciences
Can't sign in? Forgot your password?
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Julie Le Bris @julielebris.bsky.social · 05/09/2025
Delighted to share our recently published work! Ever wondered how Klebsiella (and others) deals with capsule production’s costs ? The paper: journals.asm.org/doi/10.1128/... Thread👇
journals.asm.org
Phenotypic heterogeneity of capsule production across opportunistic pathogens | mBio
The polysaccharidic capsule is present in ~50% of species across the bacterial phylogeny, including all ESKAPE microorganisms, the six most significant multidrug-resistant (MDR) nosocomial pathogens. It is also an important virulence factor and a major ...
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Eduardo Rocha @epcrocha.bsky.social · 23/07/2025
Here's our new broad review on the extended mobility of plasmids, about all mechanisms driving and limiting their transfer. From conjugation to conduction, phage-plasmids to hitchers, molecular to evolutionary dynamics, ecology to biotech. The state of affairs. 1/9 academic.oup.com/nar/article/...
graphical abstract of the article the extended mobility of plasmids
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Sarah Bigot @sbigot.bsky.social · 28/04/2025
New publication from our Lesterlin lab in collab with lab of @knutdrescher.bsky.social We determined the spatiotemporal dissemination of conjugative plasmids within biofilms and found that they spread only in specific structural regions. www.pnas.org/doi/10.1073/...
pnas.org
Biofilm architecture determines the dissemination of conjugative plasmids | PNAS
Plasmid conjugation is a contact-dependent horizontal gene transfer mechanism that significantly contributes to the dissemination of antibiotic res...
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Charles Coluzzi @charlescoluzzi.bsky.social · 31/03/2025
I'm very happy to share the last paper from my previous postdoc with the amazing @epcrocha.bsky.social! Thanks to the reviewers for their feedback, which improved our work! #Plasmids #AMR #HorizontalGeneTransfer #Evolution
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Feldman Lab@WashU @feldmanlab.bsky.social · 19/03/2025
Travel awards for trainees and early-stage investigators to attend the 2025 Acinetobacter conference are available. Deadline for applications is April 30. Please rt. events.faseb.org/event/1b872d...
events.faseb.org
Biology of Acinetobacter XIV
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CNRS Rhône Auvergne @cnrs-rhoneauvergne.bsky.social · 18/02/2025
#TalentsCNRS 🥉 | Découvrez la vidéo de Lucie Etienne, chercheuse au Centre international de recherche en infectiologie et lauréate de la médaille de bronze du @cnrs.fr en 2024 ! @cnrsbiologie.bsky.social @lucievirevolte.bsky.social @ensdelyon.bsky.social @inserm.fr www.youtube.com/watch?v=jE8b...
youtube.com
Lucie Etienne : décryptage des épidémies virales et des défenses immunitaires l TalentsCNRS
YouTube video by CNRS
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Michael Brockhurst @brockhurstlab.bsky.social · 06/02/2025
🚨 Job alert 🚨 — are you interested in understanding how mobile genetic elements and defence systems shape bacterial genome evolution? 🧬 🧪 🧫 🦠 2x 5-year research positions available in experimental evolution @mermanchester.bsky.social Join us! #microsky www.jobs.manchester.ac.uk/Job/JobDetai...
jobs.manchester.ac.uk
Research Associate in Experimental Evolution:Manchester
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Sorek Lab @soreklab.bsky.social · 30/01/2025
Out today @ Science: TIR signaling activates caspase-like immunity in bacteria We report a new immune signaling molecule: N7-cADPR. Produced by phage-induced TIRs and activates a defensive bacterial caspase Congrats Francois Rousset, Ilya Osterman and coauthors! www.science.org/doi/10.1126/...
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Eduardo Rocha @epcrocha.bsky.social · 27/01/2025
The contribution of natural transformation for the acquisition of novel genes has been notoriously difficult to quantify because it relies on recombination (which is affected by other processes). Here's a first estimate : doi.org/10.1101/2025... (for the very busy: 1-6% of gene gains) #MicroSky
Transformation, Recombination and horizontal transfer
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Vaughn Cooper @vscooper.micropopbio.org · 24/01/2025
What influence does evolutionary history have on basal transcriptomes? On transcriptomic response to drug? On genetic paths for drug resistance? On fitness tradeoffs? Check out our latest preprint to find out! By @aleciarokes.bsky.social @asantoslopez.bsky.social www.biorxiv.org/content/10.1...
biorxiv.org
History shapes regulatory and evolutionary responses to tigecycline in strains of Acinetobacter baumannii from the pre- and post-antibiotic eras
Evolutionary history encompasses genetic and phenotypic bacterial differences, but the extent to which history influences drug response and antimicrobial resistance (AMR) adaptation is unclear. Histor...
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Neal Curtis @nihilcurtis.bsky.social · 24/11/2024
A really good comic by @jpjhall.bsky.social on bacteria that found a very engaging way to tell the story. #GraphicScience #SciComm #comics www.andthemicrobes.org/plasmid
andthemicrobes.org
- BIZARRE BACTERIA & PECULIAR PLASMIDS — And The Microbes
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Jay Hinton @jayhinton.bsky.social · 13/11/2024
Incredible graphic - the myriad of ways that bacteria defend themselves against antibiotics. 14 resistance mechanisms, summarised by Idan Yelin & Roy Kishony in Cell www.sciencedirect.com/science/arti...
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Alan McNally @alanmcn1.bsky.social · 03/11/2024
Out today. The culmination of DETECTIVE led by the exceptional Rob. Longitudinal genomics of CRAb and identification of a new clone in China www.nature.com/articles/s41...
nature.com
Longitudinal genomics reveals carbapenem-resistant Acinetobacter baumannii population changes with emergence of highly resistant ST164 clone - Nature Communications
Carbapenem-resistant Acinetobacter baumannii is an important nosocomial pathogen that can cause outbreaks. In 2019, these authors conducted a genomic surveillance study of A baumannii in an intensive ...
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Rémi Fronzes @fronzeslab.bsky.social · 21/10/2024
3-year Postdoctoral position available. Topic: interbacterial competition mediated by T7SS. Techniques: molecular biology, biochemistry, microbiology, CryoEM/ET and super-resolution fluorescence microscopy. Applications (CV+publications)to remi.fronzes@u-bordeaux.fr Deadline: Jan 1st 2025
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Rémi Fronzes @fronzeslab.bsky.social · 18/10/2024
Very happy to share our latest paper published today in EMBO Journal !! www.embopress.org/doi/full/10....
embopress.org
Structural insights into the mechanism of DNA branch migration during homologous recombination in bacteria | The EMBO Journal
imageimageThe bacterial hexameric ATPases RadA and ComM mediate DNA branch migration in the homologous recombination pathway of genetic transformation in distinct bacterial species. This study offers ...
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