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Jean-Yves Bouet

@jyb-tlse.bsky.social
125 followers 84 following 2 posts

Microbiologist, Molecular genetics, DNA, Genome Dynamics Research director CNRS Group leader at CBI

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Reposted by Jean-Yves Bouet
Shreya Vichare @shreyavichare.bsky.social · 02/10/2026
It’s finally starting to feel real 🧬🌾 Preprint's out! @daganlab.bsky.social we asked: when does a plasmid stop being “accessory”? In Pantoea agglomerans, LPP1 promotes wheat-root colonization and is deeply integrated with chromosomal gene regulation and metabolism. www.biorxiv.org/content/10.6...
biorxiv.org
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Science X / Phys.org @sciencex.bsky.social · 09/09/2026
Two DNA double helices were directly imaged zipping together for the first time, confirming a more than 20-year-old model. The pairing was precise, groove for groove, but some sequences formed stronger hotspots.
phys.org
Decades-old DNA mystery solved after strands are captured zipping together for the first time
Researchers have captured the moment two DNA molecules zip together, overcoming their identical negative charges to pair up and revealing a mechanism that has puzzled scientists for more than 20 years.
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Reposted by Jean-Yves Bouet
Sneha Sundar @sunsneha.bsky.social · 01/10/2026
Ever wondered how plasmid mobility differs across natural environments? In our new ISME Commun paper, Sebastian Bonhoeffer, @jhuisman.bsky.social and I ask: do F-like plasmids in E.coli associated with cows, pigs and poultry differ in their ability to transfer? [1/6] doi.org/10.1093/isme...
doi.org
Transfer potential of F-like plasmids in Escherichia coli differs by animal environment
Abstract. Plasmids play a key role in the spread of virulence and antimicrobial resistance genes to new genetic backgrounds. Genetic variation in the trans
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Nature Portfolio @natureportfolio.nature.com · 22/09/2026
Active chromatin is usually described as open and accessible. The authors of a paper in Nature Genetics write in this Behind the paper post how their live-cell imaging shows instead that euchromatin forms condensed domains, and that cohesin helps keep neighboring domains from mixing. 🧬🧪
go.nature.com
Active chromatin is not simply open: it forms compact domains that cohesin keeps from mixing
Active chromatin is usually described as open and accessible. Our live-cell imaging shows instead that euchromatin forms condensed domains, and that cohesin helps keep neighboring domains from mixing.
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Richard Sever @richardsever.bsky.social · 20/09/2026
"All corners of academia will soon be flooded with AI-generated research....Maths and CS go first because their entire output is symbol manipulation...Biology comes later not because biologists are cleverer but because the rate-limiting step is physical" giorgio.gilest.ro/the-weimar-o...
giorgio.gilest.ro
The Weimar of knowledge – la bottega
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Didier Mazel @amazeld.bsky.social · 18/09/2026
Dear all, I have the pleasure to inform you that the online course "Resistance to Antibacterial Agents", produced by the Institut Pasteur, will start on November 3, 2026. How does ABR emerge and spread? ... 🔗 www.fun-mooc.fr/en/courses/r...
fun-mooc.fr
Resistance to antibacterial agents
The origin, risks, diagnosis, epidemiology of resistance to antibacterial agents in man and livestock worldwide, as well as preventive and countermeasures, in a « one health » perspective.
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Benoit Pons @benoitjpons.bsky.social · 17/09/2026
🧬Phages in Toulouse — November 18–20, 2026! 🦠 We are delighted to announce the next edition of Phages.fr congress, Phages in Toulouse, bringing together the phage research community for 3 days of talks, presentations & scientific discussions! 📍 Toulouse, France 📅 Nov. 18–20
phages.fr
Réseau Bactériophage France
Bienvenue sur le site du réseau “Phages.fr” Le réseau “Phages.fr” regroupe des scientifiques qui travaillent sur les thématiques incluant les bactériophages dont l’étude des structures, interactions moléculaires & cellulaires, écologie & évolution, thérapie phagique et biocontrôle en santé humaine, végétale & animale et industrie ainsi que des Sciences humaines et sociales. Ces scientifiques appartiennent à différents instituts publics français de recherche tels que CNRS (principal financeur), INRAE, INSERM, ANSES, Institut Pasteur mais aussi de nombreuses universités (Bordeaux, Lyon, Marseille, Montpellier, Nancy, Paris, etc) et hôpitaux, avec aussi la participation de membres d’entreprises.
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biophychrom.bsky.social @biophychrom.bsky.social · 05/02/2026
Mark your calendars for the next incarnation of the Biology and Physics of the Prokaryotic Chromosome meeting to be held in Paris on July 6-9, 2027. See the web site for further information biophychrom2027.sciencesconf.org
biophychrom2027.sciencesconf.org
The Biology and Physics of Prokaryotic Chromosomes VIII - Sciencesconf.org
Presentation
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Paul Hoskisson 🧫 🦠🐸 @paulhoskisson.bsky.social · 13/09/2026
Fascinating stuff - Acquisition and erosion of toxin-antitoxin systems in bacterial chromosomes academic.oup.com/mbe/advance-...
academic.oup.com
Acquisition and erosion of toxin-antitoxin systems in bacterial chromosomes
Abstract. Toxin-antitoxin systems (TAs) are widespread in bacterial genomes. Yet, their integration, persistence, and impact in chromosome dynamics remain
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David Sünderhauf @davvi36.bsky.social · 10/09/2026
Please share! We are looking for a PhD student excited about gene transfer, and tackling Antimicrobial Resistance in Klebsiella pneumoniae. 🧬 More details & applications on funder website by 21st Oct 👇🏻 gw4biomed.ac.uk/developing-c...
gw4biomed.ac.uk
Developing CRISPR-Cas antimicrobials to tackle antibiotic resistance spread in Klebsiella pneumoniae - GW4 BioMed MRC DTP
Project Code IIAR27Ex van Houte Project Type Wet lab Research Theme Infection, Immunity, and Antimicrobial Resistance Project Summary Download Summary Antimicrobial resistance (AMR) poses a major thre...
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Plasmid Society @plasmidsociety.bsky.social · 07/09/2026
Day 1 of #ISPB2026 has come to an end! Today’s programme included the great talk by Adrián Cazares, followed by sessions on plasmid maintenance, replication and evolution. Did you meet up with old friends at the get together or did you make some new ones? #ISPB #Plasmids #MGEs
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Flora Gaudillière-Jami @fgaudilliere.bsky.social · 28/07/2025
The preprint of my first article is available on bioRxiv! We use a transposon ecology framework to analyze the distribution of insertion sequences within prokaryotic genomes. We characterize their ecological niche and show evidence of niche construction 🧪🧬💻 www.biorxiv.org/content/10.1...
biorxiv.org
Unwelcome guests: characterizing the ecological niche of insertion sequences within prokaryotic genomes
Insertion sequences (ISs) are widespread prokaryotic transposable elements, often regarded as genomic parasites that primarily cause deleterious mutations. However, they can also promote adaptive chan...
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Plasmid Society @plasmidsociety.bsky.social · 01/09/2026
The countdown is on! #ISPB2026 starts next week. Here’s everything you need to know before the congress 👇
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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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Eric Schares @eschares.bsky.social · 31/08/2026
🚨Update: Our analysis of global APC expenditure has now been expanded to cover more publishers (7 -> 14) and more years (2019-2025). We estimate $15B in APCs paid over seven years, $3.7B in 2025 alone. Elsevier crosses the $1B threshold by itself in 2025. arxiv.org/abs/2608.16322 #ScholComm
Line chart showing 5 biggest publishers from 2019-2025
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 18/08/2026
academic.oup.com/nar/article/... 🦠
academic.oup.com
The leading region of many plasmids is adapted for translational efficiency
Abstract. To successfully transfer, conjugative plasmids must overcome a recipient cell’s defence mechanisms. The leading region of many plasmids—the first
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Aisha Syeda @aishasyeda.bsky.social · 16/08/2026
DNA gyrase is an essential enzyme that helps resolve positive supercoils. In vitro estimates indicate that a single gyrase enzyme resolves 1 supercoil/second. So how does it then keep up with replication in living cells that generate ~100 supercoils every second? We think we found why. 🧵
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Saganism @sagan.bsky.social · 14/08/2026
41 years ago, Carl Sagan gave a clear and elegant explanation of the science behind global warming.
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Cascales Lab @cascaleslab.bsky.social · 12/08/2026
Proud to see our review "Anti-type VI tactics: bacterial defenses against T6SS attacks" featured on the Cover @cp-trendsbiochem.bsky.social www.cell.com/trends/bioch... Kudos to @nicrivard.bsky.social for creating this fantastic Cover illustration! But… do do you recognize the original painting?
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Tung Le @tunglejic.bsky.social · 11/08/2026
Now published in JBac. Absolutely great publishing experience!!! Thank you to editors and reviewers.https://journals.asm.org/doi/10.1128/jb.00286-26 Another great one from @tommclean.bsky.social @johninnescentre.bsky.social @hbio-isp.bsky.social
journals.asm.org
TrbA binds and locks a sliding clamp KorB to repress transcription on multi-drug resistance plasmids | Journal of Bacteriology
Precise regulation of gene expression ensures gene products are produced at the right time and in the right amounts. Recent works uncovered a new mechanism of bacterial gene regulation based on a clamp sliding and locking in a multi-drug resistance plasmid, RK2. KorB functions as a CTP-dependent DNA-sliding clamp capable of traveling over a long genomic distance. Sliding KorB is captured and locked in place by a partner protein, KorA, forming a stable complex at target promoters to repress transcription. Here, we show that another RK2 regulator, TrbA, also uses this clamp sliding-locking mechanism, and identify an aromatic interface enabling TrbA-KorB-mediated transcriptional repression. Our findings show how a single sliding clamp integrates multiple partners to build a complex transcriptional regulatory network.
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Jean-Yves Bouet @jyb-tlse.bsky.social · 10/08/2026
Happy to share our latest work: Fast assembly and in vivo coalescence of ParBf biocondensates involved in bacterial DNA partition academic.oup.com/nar/article/... Great thanks to all contributing authors and in particular Perrine Revoil and Linda Delimi for their fruitful collaborative interactions
academic.oup.com
Fast assembly and in vivo coalescence of ParBF biocondensates involved in bacterial DNA partition
Abstract. Faithful DNA segregation in bacteria relies on ParABS systems, in which ParB assembles into condensates at centromere-like parS sites, while the
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Jens Hör @jenshoer.bsky.social · 10/08/2026
Do you need to analyze bacterial microscopy data and are looking for an all-in-one tool for Windows or macOS? Check out BactoMate by Lasse Hallenga and Philipp Popp! I'm happy that we were able to contribute to this great work. www.biorxiv.org/content/10.6...
biorxiv.org
BactoMate: an integrated platform for reproducible bacterial microscopy analysis
Quantitative microscopy of microorganisms increasingly produces large, multidimensional datasets, yet their analysis often depends on fragmented workflows spanning file conversion, segmentation, quali...
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Tominaga K. (tomiken) @pacyc184.bsky.social · 08/08/2026
Structural Maintenance of Chromosomes Complexes in Bacteria | Annual Reviews
annualreviews.org
Structural Maintenance of Chromosomes Complexes in Bacteria
Structural maintenance of chromosomes (SMC) complexes are conserved ATP-driven machines that organize, compact, and segregate genomes in all domains of life. Despite variation in subunit composition and regulation, all SMC complexes share a core structure and mechanism of action. Bacteria possess two major classes of SMC complexes, SMC-ScpAB and MukBEF, which function in chromosome compaction and segregation. In addition, some bacteria contain other SMC complexes or SMC-like systems such as MksBEF, Wadjet, RecN, and SbcC, each with specialized functions. Bacterial SMC complexes coordinate genome maintenance, DNA replication, DNA repair, plasmid defense, and cell physiology. In this review, we discuss the structure and function of these bacterial SMC complexes, highlighting the shared characteristics and unique strategies employed by each.
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 08/08/2026
Mathematical Modelling of Bacterial DNA Inversion Dynamics Uncovers an Organized Multi-Locus Response to Phage Predation in Bacteroides fragilis www.biorxiv.org/content/10.64898/20…
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 08/08/2026
Vibrio cholerae VgrG1-ACD Targets E. coli MreB and Regulates Cellular Morphology www.biorxiv.org/content/10.64898/20…
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Cascales Lab @cascaleslab.bsky.social · 07/08/2026
Happy to share our latest review on the "Structure and function of the #T9SS for protein secretion and cellular motility" to be published in the incoming volume 80 of Annual Review in Microbiology. Kudos to Yaelle Aouizerate and @thicoz.bsky.social ! www.annualreviews.org/content/jour...
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Aaron Straight @astraight.bsky.social · 03/08/2026
These two reviews on centromeres and kinetochores in @natrevmcb.nature.com cap off @andrea-musacchio.bsky.social sabbatical at @stanfordbiochem.bsky.social from @valleefoundation.bsky.social. Long time in the making! Non-paywall versions rdcu.be/fxD9V, rdcu.be/fxEar
rdcu.be
Structure and function of the centromere and inner kinetochore
Nature Reviews Molecular Cell Biology - The kinetochore is a macromolecular complex that assembles on centromeric chromatin and connects spindle microtubules to the chromosome. This Review...
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Magnus Kjærgaard @proteinmagnus.bsky.social · 03/08/2026
Why do intrinsically disordered proteins behave so weirdly during SDS-PAGE? This is the question we aim to answer in our recent paper: onlinelibrary.wiley.com/doi/10.1002/...
onlinelibrary.wiley.com
Sequence determinants of the hypomobility of intrinsically disordered proteins in <fc>SDS</fc>‐<fc>PAGE</fc>
Proteins with intrinsically disordered regions (IDRs) migrate at a higher apparent molecular weight in sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis, complicating their analysis and...
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Vivek Mutalik @vivekmutalik.bsky.social · 25/07/2026
New Preprint 🥳 Here we wondered how phages that have been extensively studied in laboratory E. coli strains actually behave when they encounter a real pathogen such as O157:H7 strain...one with a far more complex cell surface & one of the most consequential foodborne pathogens in the United States.
static.klipy.com
Animated E. coli Bacteria Drawing
Alt: Animated E. coli Bacteria Drawing
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sbulgheresi.bsky.social @sbulgheresi.bsky.social · 22/07/2026
Our new preprint is out! We investigate chromosome organization in obligate mammalian symbionts and show that these bacteria maintain stable chromosome orientations while displaying conserved lifestyle-associated chromosome architectures across species. www.biorxiv.org/cgi/content/...
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 24/07/2026
A self-organized geometry sensing oscillator spatially regulates cell division in archaea www.biorxiv.org/content/10.64898/20…
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César de la Fuente @delafuentelab.bsky.social · 20/07/2026
Biology has plenty of data—the challenge is making it usable. AllTheBacteria transforms 2.44 million public bacterial and archaeal genomes into an open, uniformly processed, searchable, AI-ready resource. www.biorxiv.org/content/10.1...
biorxiv.org
AllTheBacteria: a community resource empowers biology and discovers novel peptide antibiotics
Public microbial genomes encode an immense record of biological diversity, evolution and molecular function, but much of this information remains difficult to reuse because raw sequencing data are not...
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Miloš Tišma @tismaa.bsky.social · 21/07/2026
I'm happy to share the first paper from my postdoc work: www.biorxiv.org/content/10.6... How does RecA find one homologous sequence in an entire chromosome -and what turns that encounter into a repair-competent one? We find that DNA topology is the gatekeeper !! 1/10
biorxiv.org
Chromosome topology gates productive RecA homology search
In homologous recombination, DNA repair depends on recombinase filaments finding homologous templates on chromosomes whose topology is continually remodeled by replication and transcription. How dynam...
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Rob Edwards @linsalrob.bsky.social · 22/07/2026
Starting with the DNA sequence of a #phage genome, #PholdAPhage will create a 3D reconstruction of the complete phage, almost like you did cryoEM on it! Check out Renee's awesome software github.com/reneegreen81... to assemble unknown phage particles one protein at a time
A computer generated 3D reconstruction of a phage, based solely on its genome sequence. For this image, we started with the genome, and used PholdAPhage to create the structures. Colours are based on pLDDT scores.
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Cameron Thrash @jcamthrash.bsky.social · 13/07/2026
Characterizing the ecological niche of insertion sequences within prokaryotic genomes academic.oup.com/ismej/advanc... #jcampubs
academic.oup.com
Characterizing the ecological niche of insertion sequences within prokaryotic genomes
Abstract. Insertion sequences (ISs) are widespread prokaryotic transposable elements, often regarded as genomic parasites that primarily cause deleterious
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Mathieu M.J.E. Rebeaud @chercheurjuteux.com · 11/07/2026
The Origin of Life in the Light of Evolution Another food for thought paper with @lauraeme.bsky.social and a lot of fantastic scientists. arxiv.org/abs/2605.05464
arxiv.org
The Origin of Life in the Light of Evolution
The origin of life is often framed primarily as a chemical problem, yet life's defining feature is evolution. Advances in geochemistry, prebiotic chemistry, and molecular biology have produced diverse...
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ASM @asm.org · 06/07/2026
#MicrobiologyMonday: Many bacterial species contain specialized subcellular compartments that help organize and protect essential cellular functions. These structures may contribute to pathogen survival and virulence during infection. #mBio: asm.social/2ZP
Fig 1 Subcellular compartments found in bacterial pathogens. Representative micrographs, a summary of form and function, and a non-exhaustive list of pathogens containing bacterial microcompartments, encapsulins, and ferrosomes. Black triangles denote bacterial microcompartments. White arrows denote encapsulins. Black arrows denote ferrosomes. Asterisks denote unknown storage granules. Red and white triangles denote inner and outer membranes, respectively. Micrograph of bacterial microcompartments in S. Typhimurium (top) is adapted from reference 17. Micrograph of encapsulins in Mycobacterium marinum (middle) is adapted from reference 18. Micrograph of ferrosomes in C. difficile (bottom) is adapted from reference 19. Micrographs were modified from the originals by cropping and replacement or addition of arrows, triangles, asterisks, and scale bars.
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George O'Toole (he/him/his) @geiselbiofilm.bsky.social · 06/07/2026
New in JB: Milcarz, Zakrzewska-Czerwińska et al. describe a N-terminal domain of FtsK, conserved among mycobacteria, that plays a key role in asymmetric cell division, likely via interacting with specific proteins & membrane lipids. @asm.org #JBacteriol #MicroSky journals.asm.org/doi/10.1128/...
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 04/07/2026
Predatory bacteria as members of human microbiomes and their impact on gut diversity and homeostasis www.biorxiv.org/content/10.64898/20…
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heathmurraylab.bsky.social @heathmurraylab.bsky.social · 02/07/2026
Another collaborative paper from the @ilango-aravind.bsky.social & @heathmurraylab.bsky.social team, here focused on the essential DNA replication initiation protein DnaB in Bacillus subtilis. Credit to Aurélie Guyet, Fred Schramm and @winterhalterlab.bsky.social academic.oup.com/nar/article/...
academic.oup.com
Validate User
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Ran Blekhman @blekhman.bsky.social · 27/06/2026
I wanted to like QED's new 1% preprint ranking. I really did. But the more I looked at the data, the more uncomfortable it made me. Here is my full peer review. open.substack.com/pub/blekhman...
open.substack.com
My Peer Review of The 1%
I wanted to like QED's new 1% ranking. I don't.
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Plasmid Society @plasmidsociety.bsky.social · 26/06/2026
Last call!!! 🚨🚨 Early bird registration closes today for #ISPB2026 Don’t miss your chance to benefit from reduced fee, register now!! #ISPB #MGE #Plasmids
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Jose Bengoechea @josebengoechea.bsky.social · 26/06/2026
Recruiting a postdoc to join my lab at @lshtm.bsky.social to work in an MRC porgramme grant funded project to dissect the gut colonziation by Klebsiella. In vivo and in vitro models, and new approaches to identify Klebsiella factors involved. jobs.lshtm.ac.uk/vacancy.aspx...
jobs.lshtm.ac.uk
Job Opportunity at LSHTM: Research Fellow
The London School of Hygiene & Tropical Medicine (LSHTM) is one of the world’s leading public health universities. Our mission is to improve health and health equity in the UK and worldwide; working i...
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Tracy Palmer @proftracypalmer.bsky.social · 24/06/2026
Check out our latest T7SS toxin story. These reverse toxins aren’t as rare as we thought!
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Lisanne Spenkelink @lisannes.bsky.social · 22/06/2026
The replication-risk sequence is an essential bacterial DNA sequence linked to DNA gap formation. For the first time, we directly observed this gap formation at single-molecule resolution! We show that the gaps occur exclusively on the lagging strand and reveal why. www.biorxiv.org/cgi/content/...
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 03/06/2026
Molecular pet or parasite? Exploring selection for vertical and horizontal plasmid transfer www.biorxiv.org/content/10.64898/20…
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Molecular Cell @cp-molcell.bsky.social · 19/06/2026
The DdmDE defense system eradicates plasmids by target-centered bidirectional ssDNA loop extrusion and site-specific cleavage
dlvr.it
The DdmDE defense system eradicates plasmids by target-centered bidirectional ssDNA loop extrusion and site-specific cleavage
Yang et al. reveal a dynamic DdmDE-mediated plasmid clearance pathway. Transient DNA bubbles permit promiscuous DdmE binding, while target specificity arises from slower dissociation at matched sites. DdmE then recruits a DdmD dimer to drive target-centered, bidirectional dsDNA unwinding. Free DdmD subsequently coats extruded ssDNA to enable site-specific endonucleolytic cleavage.
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Suckjoon Jun’s lab at UCSD @junlab.bsky.social · 18/06/2026
1/ Out today in Science (@science.org): a result a decade in the making, and one that changed how I think about what cells are doing when they grow. We found a bacterium that grows slower than it could. And we found the molecular switch that lets us reverse it.
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Scott Coyle @cellraiser.bsky.social · 16/06/2026
Sub-cellular architectures arise through integrating signaling and structure. @edenchang.bsky.social and @zjmaggiexu.bsky.social show how coupling reaction-diffusion signaling to protein condensation provides a tunable, regulatable landscape for sub-cellular structure www.biorxiv.org/content/10.6...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 16/06/2026
Molecular interplay between Integrative Mobile Elements exploiting Xer drives the evolution of cholera pandemics 🦠 www.biorxiv.org/content/10.6...
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