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Carmen?

@probablycarmen.bsky.social
40 followers 56 following 18 posts

Doctorate Candidate at the Bottanelli lab? #FUBiochemistry ?

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Reposted by Carmen?
Fran Bottanelli @franbottanelli.bsky.social · 19/05/2026
After so many #notthecover one of @probablycarmen.bsky.social of a CAR T cell engaging with a cancer cell made it to the front of @embojournal.org! Want to know more about the function of protrusions in early #Tcell activation? Check out how we became accidental immunologists!
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Reposted by Carmen?
The EMBO Journal @embojournal.org · 19/05/2026
In issue 10: Convergent evolution of aerobic fermentation CIN promotes migration & invasion via EFEMP1 secretion SenSet resource defines cell-type specific senescence signatures ... Cover: @franbottanelli.bsky.social and colleagues link.springer.com/journal/4431...
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Fran Bottanelli @franbottanelli.bsky.social · 21/04/2026
Exciting to see this out in its final form! Wonderful work led by @probablycarmen.bsky.social. Want to know why protrusions are better at initiating immune signaling in #Tcells? Look no further. Link to Carmen’s 🧵 on the preprint bsky.app/profile/prob...
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Reposted by Carmen?
The EMBO Journal @embojournal.org · 21/04/2026
Revised role for actin-rich protrusions in T-cell activation: @franbottanelli.bsky.social @probablycarmen.bsky.social et al reframe them as sites of enhanced receptor activation by exclusion & clustering dynamics, rather than pre-enrichment of signaling components link.springer.com/article/10.1...
link.springer.com
T-cell protrusions enable fast, localised initiation of chimeric antigen receptor signalling - The EMBO Journal
Actin-rich protrusions densely cover the surface of T cells and are well characterised for their role in migration. Recent studies have uncovered their contribution to antigen surveillance and immune ...
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Reposted by Carmen?
preLights @prelights.bsky.social · 02/09/2025
preLighters go live! A light and lively face-to-face conversation between the preLighters @fadelvalle.bsky.social & Vibha Singh and the researchers probablycarmen.bsky.social & Eva Mejia-Ramirez will be hosted at the @focalplane.bsky.social webinar. 4 Sept, 14.00-15.00 BST Tune in!
prelights.biologists.com
preLighters go live! This Thursday - preLights
– How do membrane actin protrusions initiate to T-cells signalling? – What does RhoA have to do with nuclear envelope tensions in stem cells? – Does advanced microscopy help study mechano-signalling –...
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Reposted by Carmen?
FocalPlane @focalplane.bsky.social · 28/08/2025
One week to go! Register now for our #FocalPlaneFeatures webinar with @prelights.bsky.social. us02web.zoom.us/webinar/regi...
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FocalPlane @focalplane.bsky.social · 21/08/2025
#FocalPlaneFeatures meets @prelights.bsky.social @fadelvalle.bsky.social & Vibha Singh have picked 2 fantastic #cellbio preprints & will be presenting their preLights alongside research talks from @probablycarmen.bsky.social & Eva Mejia-Ramirez. Register: focalplane.biologists.com/2025/08/20/f...
FocalPlane features... meets preLights
Thursday 4 September 2025, 14:00 BST (UTC+1) FocalPlane logo
Picture of Carmen Rodilla-Ramírez 
T cell protrusions enable fast, localised initiation of CAR signalling
Carmen Rodilla-Ramírez (Freie Universität Berlin)
Picture of Eva Mejia-Ramirez
Targeting RhoA activity rejuvenates aged hematopoietic stem cells
Eva Mejia-Ramirez (The Bellvitge Institute for Biomedical Research) 
preLights logo 
Hosted by preLighters Felipe Del Valle Batalla and Vibha Singh
@focalplane.bsky.social @prelights.bsky.social
#FocalPlaneFeatures #preprints
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Fran Bottanelli @franbottanelli.bsky.social · 13/08/2025
Great to see our preprint from @probablycarmen.bsky.social and co highlighted in the @focalplane.bsky.social list of studies using #microscopy to answer bio questions questions! www.biorxiv.org/content/10.1...
biorxiv.org
T cell protrusions enable fast, localised initiation of CAR signalling
Actin-rich protrusions densely cover the surface of T cells and are well characterised for their role in cell migration. However, recent studies have uncovered their role in antigen surveillance and i...
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Reposted by Carmen?
FocalPlane @focalplane.bsky.social · 12/08/2025
📢Our preprint list is up on FocalPlane 🔬 This week we featured preprints that use #microscopy to answer questions in #biology. Check them out and let us know about any recent preprints that we should add to the list! focalplane.biologists.com/2025/08/12/m...
focalplane.biologists.com
Microscopy preprints - applications in biology - FocalPlane
Microscopy preprints - applications in biology - News
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STAR Protocols @cp-starprotocols.bsky.social · 07/08/2025
Protocol for fast antibiotic resistance-based gene editing of mammalian cells with CRISPR-Cas9 #protocol #starprotocols #cellpress
dlvr.it
Protocol for fast antibiotic resistance-based gene editing of mammalian cells with CRISPR-Cas9
Protein tagging with CRISPR-Cas9 enables the investigation of protein function in its native environment but is limited by low homology-directed repair (HDR) efficiency. Here, we present a protocol for fast antibiotic resistance-based gene editing with CRISPR-Cas9 (FAB-CRISPR), which streamlines N/C-terminal tagging using an antibiotic resistance cassette for rapid selection and enrichment of gene-edited cells. We describe in detail guide RNA and HDR donor plasmid cloning, transfection of editin...
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Reposted by Carmen?
Petia Adarska @petia-adarska.bsky.social · 11/08/2025
Thrilled to share our step-by-step protocol for endogenous protein tagging with CRISPR/Cas9, featuring an antibiotic resistance cassette to boost knock-in efficiencies 🧫🧬 Now out in STAR protocols: www.sciencedirect.com/science/arti...
sciencedirect.com
Protocol for fast antibiotic resistance-based gene editing of mammalian cells with CRISPR-Cas9
Protein tagging with CRISPR-Cas9 enables the investigation of protein function in its native environment but is limited by low homology-directed repai…
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Carmen? @probablycarmen.bsky.social · 09/07/2025
Woops! .png with no background ruined EVERYTHING. Here is a readable version:
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Carmen? @probablycarmen.bsky.social · 09/07/2025
Special mention to Xiaolei Su, that led us to this adventure in immune cell biology. Thanks to @hfspo.bsky.social for funding this new exciting @franbottanelli.bsky.social lab adventure! :)
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Carmen? @probablycarmen.bsky.social · 09/07/2025
So yes, protrusions do it better! We hope this work sparks new ideas on how membrane architecture shapes signalling. Thanks for reading, and feel free to reach out with questions or thoughts!
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Carmen? @probablycarmen.bsky.social · 09/07/2025
13. Even when we used a non-signalling CAR mutant, CD45 was still excluded at protrusions. So the enhanced CD45 exclusion is not signalling-dependent.
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Carmen? @probablycarmen.bsky.social · 09/07/2025
12. We observed that exclusion at protrusion contacts happened earlier and more strongly when compared to CD45 exclusion at flat membranes
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Carmen? @probablycarmen.bsky.social · 09/07/2025
11. The answer is the increased of CD45 exclusion at protrusion mediated contacts
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Carmen? @probablycarmen.bsky.social · 09/07/2025
10. Interestingly, Lck doesn’t rearrange at the macroscale. It stays uniformly distributed even during activation, without any specific enrichment in protrusions at any point So what drives the enhanced protrusion CAR activation?
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Carmen? @probablycarmen.bsky.social · 09/07/2025
9. So… why? We go on to observe the positive and negative regulators of the process: the kinase Lck and the phosphatase CD45.
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Carmen? @probablycarmen.bsky.social · 09/07/2025
8. Then comes LAT, clustering downstream of ZAP-70. LAT clusters appear faster and more intensely in protrusions compared to main body membrane regions
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Carmen? @probablycarmen.bsky.social · 09/07/2025
7. The CAR clusters are activated immediately and the increased CAR enrichment in protrusions is accompanied with an increased ZAP-70 recruitment to these structures
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Carmen? @probablycarmen.bsky.social · 09/07/2025
6. The result: CARs enrich faster and stronger in protrusion contacts than flat membranes
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Carmen? @probablycarmen.bsky.social · 09/07/2025
5. In collaboration with Amin from the @ewerslab.bsky.social, we developed an image analysis pipeline to distinguish between protrusions and main body protein rearrangements
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Carmen? @probablycarmen.bsky.social · 09/07/2025
4. The logic works both ways: protrusive structures from the breast cancer cell are also able to push into the T cell and create a contact that accumulates CARs!
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Carmen? @probablycarmen.bsky.social · 09/07/2025
3. But the game changes when T cells meet their targets. First contacts happen via protrusions. Within seconds, CARs cluster specifically at these sites. In here, you can see a Jurkat T cell expressing a HER2-CAR (yellow) and a membrane marker (cyan) contacting a breast cancer cell (magenta).
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Carmen? @probablycarmen.bsky.social · 09/07/2025
2. In resting T cells, none of these signalling proteins were enriched in protrusions...
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Carmen? @probablycarmen.bsky.social · 09/07/2025
We CRISPR-edited Jurkat T cells to tag key signalling proteins Lck, ZAP-70, LAT, and CD45 at their endogenous loci. This means no overexpression or immunolabelling artefacts! Then we used live-cell STED and confocal imaging to track them in 4D
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Carmen? @probablycarmen.bsky.social · 09/07/2025
1. T cells are covered with actin-rich protrusions that play a key role in antigen scanning and discrimination. While growing evidence highlights their importance in immune signalling, it is unclear how they influence the reorganisation of signalling proteins when T cells engage with a target.
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Carmen? @probablycarmen.bsky.social · 09/07/2025
Check out our new preprint on the role of T cell actin-rich protrusion in CAR signalling initiation. Spoiler alert: Protrusions do it better www.biorxiv.org/content/10.1...
biorxiv.org
T cell protrusions enable fast, localised initiation of CAR signalling
Actin-rich protrusions densely cover the surface of T cells and are well characterised for their role in cell migration. However, recent studies have uncovered their role in antigen surveillance and immune signalling initiation. To investigate how membrane protrusions initiate and contribute to signalling, from the first cell-cell contact to immunological synapse formation, we performed dynamic imaging experiments of endogenously tagged signalling proteins in T cells. To quantitatively capture the early dynamics of cell-cell interactions, we employed HER2‑CAR-expressing T cells targeting HER2⁺ breast cancer cells. By harnessing live-cell imaging and super-resolution stimulated emission depletion (STED) microscopy we were able to capture topological membrane changes and their correlation with mesoscale protein rearrangements over time. Our findings indicate that, prior to activation, key molecular players in T cell activation, including the kinase Lck, the phosphatase CD45 and the adaptor LAT, as well as the exogenously expressed CAR, lack any enrichment in actin-rich protrusions. However, upon initial contact of the T cell with the target cell, a dynamic and fast rearrangement of the surface receptors, phosphatases, and kinases occurs within the protrusions, ensuring a rapid and effective initiation of the immune signalling cascade. The rapid clustering of the HER2-CAR occurs preferentially within protrusions rather than flat membrane regions and is accompanied by enhanced recruitment of the kinase ZAP-70 and LAT. While the localisation of the kinase Lck remained unchanged, protrusion-cell contacts trigger a pronounced exclusion of the phosphatase CD45, an effect observed both with and without the cytosolic signalling domain of the CAR. Overall, the signalling machinery rearranged more rapidly and efficiently at contacts mediated by protrusive structures compared to non-protrusive regions. Together, our data provide a quantitative framework illustrating how signalling proteins are dynamically reorganised to facilitate CAR-mediated activation within these specialised structures. ### Competing Interest Statement The authors have declared no competing interest.
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Fran Bottanelli @franbottanelli.bsky.social · 19/02/2025
Long in the making but our protocol for gene editing is online! FAB CRISPR is super easy and allows the generation of N and C terminal fusions with TurboID, SNAP, Halo and mStayGold. A single cloninf step to generate HDR templates! arxiv.org/abs/2502.12675 1/n
arxiv.org
Fast Antibiotic resistance-Based gene editing of mammalian cells with CRISPR-Cas9 (FAB-CRISPR)
Protein tagging with CRISPR-Cas9 enables the investigation of protein function in its native environment but is limited by low homology-directed repair (HDR) efficiency causing low knock-in rates. We ...
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Reposted by Carmen?
Fran Bottanelli @franbottanelli.bsky.social · 05/12/2024
T cells Thursday? Let's start it! We are a group of "accidental immunologists" diving into the mechanisms of membrane organization of signaling molecules in immune cells. Jurkat T cell expressing endogenously tagged ZAP70 (cyan) and a HER2 CAR (yellow), interacting with a SK-BR-2 breast cancer cell
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