🔥 Innovation at #SPAOM2025! From Hot Topics in #Bioimage Analysis & #AI 🤖🔬 to Industry Talks & Pitches, today’s sessions showed how science and technology unite to transform #imaging and discovery! Thanks to all speakers, sponsors & participants for the inspiring discussions 🙌✨ #Microscopy #SPAOM

@spaommeeting.bsky.social has started already 🌟 it's amazing seeing some colleagues again and feeling our vibrating local community 🤩 Day I started strong with neurosciences, AI, image quality assessment, pathology, live cell imaging and all the incredible workshops!

🎉 Highlights from #SPAOM2025! From cutting-edge sessions on #AI & Smart #Microscopy 🔬🤖 to our lightning-fast flash talks ⚡, today’s speakers shared brilliant ideas driving the future of imaging and discovery! Huge thanks to all presenters for the inspiring insights and energy 🙌

Yesterday at #SPAOM2025: here’s what happened! 🙌 🔬 Quantum #Bioimaging & Sensing 🏢 Industry-sponsored Research Talk (Evident) 🚀 Industry Pitches Incredible talks, inspiring ideas, and cutting-edge innovation shaping the future of #microscopy! Huge thanks to our speakers & attendees! 👏

Come! We're hosting a fantastic list of speakers and hands-on workshops #ims2026

🔬🤖 ICYMI: impressive preprint from @owenlabuob.bsky.social tackling a major bottleneck – how to systematically compare super-resolution microscopy across experiments. Novel ML framework embeds single-molecule data for cross-sample analysis. Integrated with nano-org database✨ doi.org/10.1101/2025...

Our SMLM database is out in Nature Communications: www.nature.com/articles/s41.... It allows you to store, share, analyse and compare SMLM data and, in particular, can tell you how similar your data is to the other data stored on the site, as you might do with a gene sequence for example.

🚨Our collaboration with @centriolelab.bsky.social & @gautamdey.bsky.social is out today in @cp-cell.bsky.social We show that #Expansion #Microscopy is a broad-spectrum modality for Euks, enabling 3D phenotypic maps rooted to phylogeny. #ProtistsOnSky #SciComm #SciSky www.cell.com/cell/fulltex...

What a gem from @dudinlab.bsky.social @gautamdey.bsky.social @centriolelab.bsky.social in Cell! Expansion microscopy atlas of >200 eukaryotes comparing cytoskeletal architectures revealing structures not seen before. Stunning visualisation! Exactly the kind of transformative cell biology we need.

Just in time for the presentation of his PhD work at the 𝗜𝗧𝗤𝗕 𝗡𝗢𝗩𝗔 𝗣𝗵𝗗 𝗠𝗲𝗲𝘁𝗶𝗻𝗴, our researcher António Brito’s paper on #mAIcrobe🦠 has just been released. Project developed by the research groups of @pinholab.bsky.social and @henriqueslab.bsky.social 👇Learn more about it in the post below.👇

Using #LLMs for science👨‍💻💬? We have a fun tool for you: introducing #folder2md4llms. It converts an entire folder of docs/code/pdfs/pptx into a single markdown file that you can upload to your chatbot of choice. We use it to talk with our publications database or code repos github.com/HenriquesLab...

🦠🔬🤖🧑‍💻 #mAIcrobe interface preview, a platform for #DeepLearning enabled bacterial image-based phenotyping. Check it out 💻: github.com/HenriquesLab... 📄: www.biorxiv.org/content/10.1...

Fun fact, Marvin Minsky, one of the inventors of the confocal, is also one of the early pioneers of AI en.wikipedia.org/wiki/Marvin_...

Cool news about #RxivMaker. Adding lots of new features 🏃. An rxiv-markdown manuscript can now have embedded code that helps keep all your data updated (e.g. inserting number of samples by reading data like .xls). Both #RxivMaker and #mAIcrobe preprints are written with it arxiv.org/abs/2508.00836

🦠🔬🤖🧑‍💻 #mAIcrobe is out! With @pinholab.bsky.social's lab, we launched an open-source framework for high-throughput bacterial image analysis. By rockstars A. Brito & B. Saraiva et al, making #DeepLearning for phenotyping accessible! Easy to use, plus model training 📜 www.biorxiv.org/content/10.1...

PhD project available in my lab. Email me with CV if interested www.findaphd.com/phds/project... #microsky #bioimaging

🚀🔬 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

Thrilled to have @leicamicrosystems.bsky.social as a Gold Sponsor at #SPAOM2025! 🔬💛 Join their exciting workshops: 🧬 Multiplex & Spatial Biology 🧫 Gentle 3D Imaging of Living Tissues 🎙️ Francisco Porto & John Robert Pearson Dive into 3D imaging breakthroughs! #Microscopy #SpatialBiology #3DImaging

🌟 Big thanks to Evident Microscopy, our Platinum Sponsor at #SPAOM2025! 🙌🔬 Join their workshops: 🧪 Advancing Confocal Imaging – Björn Sieberer 🌀 IXploreSpinXL: Spinning Disk Confocal – Wojciech Brutkowski Don't miss these cutting-edge sessions! 🔍✨ #Microscopy #LifeSciences #Evident

Happy #FluorescenceFriday. Christophe Leterrier⭐in #TheMicroscopists and reflects on the make-or-break moment at the end of his postdoc when he came close to leaving academia before securing his CNRS position and how these experiences shape the way he mentors others. Stream: bit.ly/microscopist...

🌟 Announcing Prof. Arrate Muñoz-Barrutia as a Plenary Speaker at #SPAOM2025! She’s leading the way in 🧠 AI + 🔬 bioimage analysis to transform how we detect and treat disease. Don’t miss her in “Hot Topics in Bioimage Analysis and AI” 🤖📊 #Microscopy #AIinScience #LifeSciences #WomenInSTEM

🔬 Got new data that’s hot off the microscope? SPAOM is accepting late-breaking abstracts for poster presentations! 🗓️ Deadline: Oct 13 📍 Present your work at the premier microscopy meeting of the Iberian community. Submit here ➡️ spaom2025.org/registration/ #SPAOM #Microscopy #CallForAbstracts

🌟 We’re thrilled to have Esther González-Almela at #SPAOM2025! She’s a Marie Skłodowska-Curie Fellow at CNB-CSIC, exploring how viruses manipulate nuclear architecture using advanced imaging tools 🔬 Her talk will be one to watch! #Microscopy #Virology

Looking for your next adventure? Want to be our colleague? #NIMSB is a new institute in medical systems biology recruiting group leaders. It's a sister institute to ours (@itqbnova.bsky.social), offering excellent opportunities for collaboration. Come be our scientific neighbours!

Passionate about #SystemsBiology and ready to lead your own research group? Join us at the forefront of discovery — apply now to be a #GroupLeader at the NOVA Institute for Medical Systems Biology, in beautiful Lisbon, PT! Appl. by Oct 8: www.nature.com/naturecareer... #ScienceJobs #JobOffer

Check the full preprint and its movies for more details: www.biorxiv.org/content/10.1... Congrats @wiesner-t.bsky.social and the whole team! @inp-marseille.bsky.social @ncis-marseille.bsky.social @univ-amu.fr @cnrsbiologie.bsky.social @agencerecherche.bsky.social @neuromarseille.bsky.social 11/11

And we confirmed this by performing 2-color TIRF imaging of VAMP2-pHluorin and clathrin-mCherry along axons, showing that over 5 minutes, very few exocytic sites were also sites of clathrin pit formation 10/11

So are exocytic events taking place in the same spectrin clearings as clathrin pits formation? Postdoc Christopher helped extending our correlative approach to 2-color SMLM on the @abbelight.bsky.social scope, showing that exocytic sites are distinct from clathrin pit-containing clearings 9/11

Please note the cool detection and annotation of spectrin nanoscale periodicity in these experiments (yellow stripes) - we used the recently published SReD approach that was developed by @afonsomendes92.bsky.social and @henriqueslab.bsky.social: www.nature.com/articles/s41... 8/11

Are exocytic events happening in holes of the spectrin scaffold? To answer this question, we developed live-cell / SMLM correlative imaging to link exocytic sites to their nanoscale environment. Yes, exocytosis along the axon shaft occurs in areas devoid of the submembrane spectrin scaffold! 7/11

In our neuronal cultures, we could visualise spontaneous exocytosis of VAMP2-pHluorin containing vesicles not only at presynapses (in magenta below), but also along the axon shaft itself (outside of the pink blobs) 5/11

Seeing exocytosis is harder than endocytosis: faster, no clathrin pits visible in fixed cells, requiring live-cell imaging! We used TIRF to image the release of vesicles containing VAMP2-pHluorin along axons, and pHusion from @stephgupton.bsky.social's lab (doi.org/10.1242/jcs....) to detect it 4/11

What about exocytosis? It would also need access to the plasma membrane - it happens a lot at presynapses that happen to be devoid of the periodic submembrane scaffold… Can exocytosis happen along the axon shaft at sites determined by the actin-spectrin scaffold? 3/11

Together with @stefvass.bsky.social, we previously found that the dense submembrane axonal scaffold is regulating the formation of clathrin-coated pits along the proximal axon, by forming circular ”clearings” that allow access to the plasma membrane: www.science.org/doi/10.1126/... 2/11

Our new preprint is up! This is the main postdoc work of @wiesner-t.bsky.social focusing on exocytosis along the axon shaft and its regulation by the sub membrane actin-spectrin scaffold: www.biorxiv.org/content/10.1... Read the thread below for a summary of our findings 🧵1/11

Awesomeness from the NeuroCyto lab (kudos @wiesner-t.bsky.social for great story)! They found exocytosis in "holes" within the axon's spectrin skeleton, separate from endocytosis sites. Our team mapped structural patterns and disruptions (via #SReD). Thanks for including us @christlet.bsky.social

The plugin can also be run in separate steps for debugging and to use different segmentation algorithms for registration. (9/9) www.youtube.com/watch?v=cypD...

💻 You can directly try out CLEM-Reg for yourself with our @napari.org plugin where we also include a sample benchmark dataset. Installation instructions are here 👉 github.com/krentzd/napa... (8/9) www.youtube.com/watch?v=ud3z...

Super happy to see CLEM-Reg out in @natmethods.nature.com! A short thread on the algorithm behind it and how to try it out for yourself🧵(1/9) www.nature.com/articles/s41...

Awesome to see this out. Thank you for bringing us in the journey @em-stp.bsky.social and @martinjones.bsky.social. Keep rocking @danielkrentzel.bsky.social!

LLM-agent never skips leg day

Next on stage is Eduard Unterauer @eduardunterauer.bsky.social from @jungmannlab.bsky.social reporting spatial proteomics with DNA PAINT #SMLMS2025

Dominik Wöll (RWTH Aachen) is next on stage, sharing his great work on nano-scale SMLM imaging of soft nanoparticles #SMLMS2025

Second session starts off with Johan Elf elflab.icm.uu.se sharing his great work on imaging the dynamics of the bacterial chromosome #SMLMS2025

I've been exploring the forests around Bonn before my first #SMLMS2025 conference starts tomorrow! I'm looking forward to meeting new faces and talking about science! If you'd like to find out what we've been up to in the lab lately, come to my talk on Friday at 10:20! @smlm-symposium.bsky.social

Michelle Frei @michellefrei17.bsky.social presenting her great work on probes enabling stunning microscopy images and biological applications #smlms2025

We are kicking off #SMLMS2025 and are happy to welcome you all in Bonn! @smlm-symposium.bsky.social www.smlms.org

Next on stage is Tanja Menche from @heilemannlab.bsky.social reporting single-molecule imaging of the T-cell receptor in cells using quantitative DNA-PAINT #SMLMS2025 👏