The qbio #quantitative #biology is part of the IDIL Master program of the Montpellier University. @umontpellier.bsky.social idil.edu.umontpellier.fr

In two weeks, our #qbio #Master students learned to build, from drawing to full realization, their own : confocal FCS, TIRF microscope, and optical tweezers setup ! This is hand-on #microscopy ! Interested ? Join the qbio master next year at the Montpellier University ! qbio.umontpellier.fr

Excited to share our new preprint on Myxococcus xanthus! We show that two distinct motility motors can propel the same bacterial cell simultaneously, and that this dual propulsion is tunable by environmental calcium. 🧵 1/6 📄 Read it here →https://www.biorxiv.org/content/10.1101/2025.10.29.685086v1

ICYMI – Check out our latest #preprint list on FocalPlane, highlighting the latest tools and techniques in microscopy. focalplane.biologists.com/2025/10/22/m...

Last call for Les Houches! Apply now or never! ;) (ok, in 2 years again then) and share with your friends.

mAIcrobe: an open-source framework for high-throughput bacterial image analysis https://www.biorxiv.org/content/10.1101/2025.10.21.683709v1

🚀🔬 Announcing #IMS2026 at @itqbnova.bsky.social! We're assembling a #LifeSciences #Microscopy symposium packed with ✨ speakers and 🧑‍🔬 workshops. All about imaging cells with photons, electrons and AI! If you love microscopy, you need to be here. Join us on March 19! ims2026.itqbnovacommunity.org

Sign up for our annual Impromptu Symposium on Nov. 21 in the Biophore @unil.bsky.social organized by Christophe Keel and Jordan Vacheron, which will explore the fascinating world of microbe–plant interactions with an exciting speaker line up! Registration (lunch included): forms.gle/t4fC8uQV5HQF...

Everyone interested in bacterial signal transduction, environmental sensing and motility, don't miss this conference organised by Ariane Briegel @arianebriegel.bsky.social and myself! We have great invited speakers and a number of slots allocated to short talks: www.grc.org/sensory-tran...

We’re excited to announce the incredible speaker line-up for the Prokaryotic Cell Biology Conference! Join the leading researchers as they explore the latest advances in Nanoimaging, Cell Growth and Cellular Structures. Join our speakers & register today! ➡️https://bit.ly/47rtkbw #ProkaryoticCellBio

Have you submitted your abstract for #EESCollectivity? No? It's about time! This new event will discuss how collective behaviours arise from fundamental principles across biological systems, from cells to animal groups. 🦠🐾 👉 Join us and submit your abstract by 18 Nov: s.embl.org/ees26-01-bl

When its meal turns toxic, the tiny worm #CElegans shuts down digestion thanks to a single protein that links its “taste” neurons to the gut.

We present multi-immersion Oblique Plane microscope (miOPM), a light-sheet platform that can be adapted to a wide range of applications, from sensitive live cell imaging to imaging organs and cleared tissues. www.biorxiv.org/content/10.1...

I’m not sure as a community we **truely** acknowledged how powerful the #CellMigrationSeminarSeries series was at keeping us connected at such an uncertain time. Thank-you @ankita13jha.bsky.social @adamshellard.bsky.social @drjenmitchell.bsky.social & @simplythebex.bsky.social

📝New preprint! #MicroSky 🕰️We chart the full, synchronized lifecycle of a predatory bacterium using Hi-C, RNA-seq, ChIP-seq & microscopy. 🧬We uncover dramatic shifts in nucleoid architecture & transcription, tightly coordinated with predation. www.biorxiv.org/content/10.1...

Happy to share that ShapeEmbed has been accepted at @neuripsconf.bsky.social 🎉 SE is self-supervised framework to encode 2D contours from microscopy & natural images into a latent representation invariant to translation, scaling, rotation, reflection & point indexing 📄 arxiv.org/pdf/2507.01009 (1/N)

New short paper from our lab @currentbiology.bsky.social, in which we discover of a new mode of cell motility for choanoflagellates: flagellar gliding. www.cell.com/current-biol... - A 🧵

Excited about our most recent collaboration with the Wong lab, lead by William Schmidt, describing a T4P and CdrA-mediated mechanism of sensing surface EPS. Fun stuff and great work William and team. www.nature.com/articles/s41...

🔥Would you like to explore the principles behind collective behavior in biological systems, from cells to communities? Don't miss this EMBO | EMBL Symposium! #EESCollectivity

Kin Recognition Systems and Their Role in Multicellular Behaviors #AnnuRevMicrobiol by Karin Yaniv and Karine Gibbs @ucberkeleyofficial.bsky.social four bacterial and eukaryotic microorganisms with collective migration where recognition is known or implied www.annualreviews.org/content/jour...

Wow, more than 2.4M of assembled bacteria in the new release of ABT! We plan to index these using our efficient colored De Bruijn graph index, Fulgor. We recently conducted experiments with nearly 1M genomes…getting there :) www.biorxiv.org/content/10.1...

🧬🔬🧪 🎉 Our team at @czbiohub is thrilled to share TWO companion papers out today in @NatureMethods! 📦 Ultrack — robust, scalable nD cell tracking 🌐 inTRACKtive — a beautiful, open-source web viewer for lineage exploration Let’s dive in! 👇 www.nature.com/articles/s41... www.nature.com/articles/s41...

Collective cell motion has many forms, but rotation is the coolest of them all. I'm @onenimesa.bsky.social , and in this short🧵, I'll highlight some instances of global tissue rotation like this one from @BauschLab

Automated optogenetic control of hundreds of cells in parallel. Each cell is individually steered, collectively acting as a "tissue printer". Preprint & code out! www.biorxiv.org/content/10.1...

🔬🧠 Our paper on smart microscopy & the issue of interoperability! www.biorxiv.org/content/10.1... LONG THREAD WARNING: Smart microscopy uses real-time image analysis to automatically guide the acquisition or perturbation of the sample (closed feedback-control loop). Many applications exist:

Happy to share our community note published in Nature Communications @natcomms.nature.com. In this 14-page article (34 authors from 9 countries), we discuss current practices in phase separation. We hope it will be useful to the biomolecular condensate community. www.nature.com/articles/s41...

More on collective behavior: Our new Annual Review of Biophysics piece - with the stellar Danielle Chase - explores how animals sense, share information, and make group decisions. In honeybees and beyond 🐝 www.annualreviews.org/content/jour...

We’re excited to share LiteLoc — a lightweight and scalable deep learning framework for high-throughput single-molecule localization microscopy, enabling analysis speed of >500 MB/s on 8× RTX 4090 GPUs without compromising accuracy. rdcu.be/eztp6

Dreaming of a swimming pool? Bacteria are surrounded by water! Water capillary forces organize bacterial colonies into gas, nematic streams, or droplet states. New paper @natphys.nature.com led by Matt Black and Chenyi Fei, with Ned Wingreen and Josh Shaevitz! www.nature.com/articles/s41...

NEW REVIEW: How DNA-binding proteins, supercoiling, and—especially—macromolecular crowding drive nucleoid phase separation. Describes recent in vivo, in vitro, and theoretical/modeling studies. doi.org/10.1128/ecos... #MicroSky #Ecoli #DNA #Biophysics #Microbiology

The 1st working version of my little @napari.org plugin (napari-czitools) is almost ready. It contains sample data, allows to read CZI metadata and can read CZI images (or parts of it) by using the sliders to crop what should be read. Still quite some things to improve ...

I just published a new video demonstrating how to use Pixi and Napari-Easy-Augment-Batch-DL for repeatable and reproducible deep learning segmentation. In this example, I use Pixi to set up a Python environment then launch Napari to explore and compare Cellpose3 and Micro-SAM. youtu.be/3ObAnSTBri8

Cell tracking is never perfect, and it's important to understand the types of errors your solution contains. Here is my stab at this: Divisualisations in @napari.org. github.com/bentaculum/d... You spin tracks out upwards from the playing video. Green edges are correct, FP in magenta, FN in cyan.

#MicroSky Summer read! Predatory bacteria kill and eat other bacteria. Their deadly actions come in many flavors, often via direct physical contact between predator & prey 🧛 How do they do it? Our review 📖 @coralietesseur.bsky.social @ysantin.bsky.social www.sciencedirect.com/science/arti...

🎉 Amazing NEWS for #ImageAnalysis & #LifeSciences folks! The ultimate #imageanalysis #hattrick is here 🧠🔬✨ www.biovoxxel.de/individual-w... Read the 🧵👇 All necessary info and links at the end ! #bioimaging #learning #science #lifescience #microscopy #fiji #imagej #machinelearning #deeplearning

Our new non-denaturing nanoscale 3D DNA tracing technology provides single-cell (and sister-chromatid specific!) readout of chromatin structure with 10kb genomic resolution - Check it out! www.nature.com/articles/s41... Congratulations to Kai and Oyvind!!

(1/n) A simple, ultrastable, and cost-effective oxygen-scavenging system for long-term DNA-PAINT imaging Please check out our new study on the benefits of sodium sulfite as oxygen scavenging system for DNA-PAINT. 👇🧵 #SuperResolution #DNAPAINT #SMLM #Microscopy

#OpenSource implementation of #polarisation -resolved single-shot differential phase contrast #microscopy (pDPC) on a modular #openFrame -based #microscope: doi.org/10.1016/j.oh... #DIYbio #lab #LED #instruments #µManager #pDPC #imaging

Swimming or sessile: the interplay between c-di-GMP signalling and flagellar motility Current Opinion in Microbiology from Victor Sourjik www.sciencedirect.com/science/arti...

We have an open engineer position to work on type IX secretion (T9SS), under the supervision of @doan_thierry (collab with HP Fierobe & A. Tolonen). 1-year contract, renewable up to 3.5 years. Please apply here or forward to anyone potentially interested: emploi.cnrs.fr/Offres/CDD/U...

Scihub stopped uploading new articles. SciDB is a continuing effort which has the entire scihub collection AND new papers. annas-archive.org/scidb

Milestones in the development of Myxococcus xanthus as a model multicellular bacterium #JBacteriol MiniReview by the Myxococcus field (about 15 labs) journals.asm.org/doi/10.1128/...

FINALLY just released the @napari.org clusters-plotter 0.9.0 🤗 pypi.org/project/napa... The latest version comes with a complete overhaul of the entire codebase to make #microscopy data introspection and browsing even more accessible, intuitive and versatile! #bioimaging Let's have a look 👇🧪💻🔬

🐠🦠Why can’t bacteria swim like fish? At microscopic scales, physics changes — viscosity rules! Researchers at our institute study how microbes like E. coli overcome this challenge with clever strategies like run-and-tumble. Watch our new video: youtu.be/drwCRRD7CGY?...

We released version 1.6 of micro_sam: - Improvements for automatic tracking. - A new experimental mode for object classification. - **New versions of the LM and EM models** The models fix artifacts in automatic segmentation, see old vs. new prediction and better 3D segmentation results due to it.

#Microscope Upcycling: Transforming legacy microscopes into #automated #cloud-integrated #imaging systems: - #OpenSource automation: X-Y positioning, focus stacking, img acquisition/storage - cost: US $300 doi.org/10.1016/j.oh... #DIYbio #lab #instruments #microscopy #Raspi #PiCam #Python #OpenCV

Chromosome Enthusiasts, join us at The Biology & Physics of Prokaryotic Chromosomes 🧬! Friendly community, fantastic speakers line-up, grant writing session for ECRs. Early-bird deadline approaching soon. @damelab.bsky.social @vslioy.bsky.social @graingerlab.bsky.social @biophychrom.bsky.social

Hydrogels are essential in mechanobiology—and PIC is a game changer. Fully synthetic yet highly biomimetic, PIC opens new possibilities for 3D cell culture applications. Congrats to Hongbo Yuan, Kouwer Lab, and rochalab.bsky.social on this detailed Nature Protocols guide! 👏📜