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Arturo Carabias

@arturocdr.bsky.social
38 followers 34 following 28 posts
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Reposted by Arturo Carabias
Andrew Santiago-Frangos @asantiagofrangos.bsky.social · 18h
Our lab's first preprint! The antiphage protein Tiamat is an ATPase and DNase with homologs across the tree of life. What started as undergrad Shirley Yuan's summer project grew into a paper and a collaboration with @jpkbravo.bsky.social's group. Link: www.biorxiv.org/content/10.6...
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EMBL @embl.org · 14/10/2025
EMBL’s 2025 Kendrew alumni award recipient may know how to make fairy tales come true. Irma Querques (@irmaquerques.bsky.social) repurposed the ‘Sleeping Beauty’ transposon as a genetic tool for new therapeutics, particularly against cancer. www.embl.org/news/people-...
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EMBL Events @events.embl.org · 10/11/2025
What an incredible time at #EMBOMobileGenome last week! 🧬 A huge thank you to everyone who made it such a success – our speakers for their inspiring talks and thought-provoking discussions, our participants for their enthusiasm and engagement, and our team for their hard work behind the scenes 🙏🏼
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Sternberg Lab @sternberglab.bsky.social · 14/11/2025
1/9 Metagenomics lets us read microbiomes in nature without cultivation, but writing (editing) them in their native context is still a major challenge. Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
science.org
Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases
Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...
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Max Perutz Labs Vienna @maxperutzlabs.ac.at · 24/08/2026
Paper alert! 📢 The @irmaquerques.bsky.social lab, with Mateusz Walter as co-first author, reveals in @natcomms.nature.com the molecular checkpoints that control how and when CRISPR-associated transposons move DNA ➡️ tinyurl.com/4mzkhwz6 @univie.ac.at @meduniwien.ac.at
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Sternberg Lab @sternberglab.bsky.social · 28/09/2026
1/13 — New pre-print from the Sternberg Lab in collaboration with Leifu Chang's Lab! TnpB nucleases have repeatedly given rise to TldRs, nuclease-dead RNA-guided transcription factors. Here we define the biological role of one TldR clade in its native host. Story: www.biorxiv.org/content/10.6...
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Alexander Harms @aharms485.bsky.social · 25/09/2026
The final version of our manuscript on TnSeq in bacteriophages (“HIDEN-SEQ”) is out today – if you have an interesting phage phenotype and want to know the underlying genetic basis, this one is for you! 1/4
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Craig Kaplan @triggerloop.bsky.social · 25/09/2026
Cryo-EM peeps are living the dream www.science.org/doi/10.1126/...
science.org
In-cell structures visualize human pre-ribosome assembly in the nucleolus
In eukaryotes, ribosome biogenesis initiates within the nucleolus, a hallmark multilayered compartment of the nucleus. Structures of pre-ribosomes have been characterized ex situ, but their assembly p...
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Reposted by Arturo Carabias
Arc Institute @arcinstitute.org · 23/09/2026
Many important bacterial non-coding RNAs and structural elements remain undiscovered. To help, David Li, Garyk Brixi, Michael Fischbach, @brianhie.bsky.social & team introduce Minerva, which uses a genome language model to predict RNA base pairing, repeats, & other interactions from sequence alone.
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Anthropic @anthropic.extwitter.link · 23/09/2026
Claude has discovered a previously unknown enzyme system hidden in the DNA of bacteriophages. Beside the enzyme’s gene sits a long array of repeating DNA—a structure that looks somewhat similar to CRISPR. We don’t yet understand what this system does, but only a handful of known systems share it...
anthropic.com
Claude discovers a novel enzyme system with CRISPR-like repeats
Anthropic is an AI safety and research company that's working to build reliable, interpretable, and steerable AI systems.
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Reposted by Arturo Carabias
Cathy Spangler @cathyspangler.bsky.social · 22/09/2026
I'm excited to share our new preprint, where we show that fine-tuning gold nanoparticle conjugation to different Fab structural elements can produce powerful, rigidly coupled, labeling tools for in-situ cryo-ET. Take a look if you want to see an AuNP in an EM map!🔬🧠 www.biorxiv.org/content/10.6...
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Reposted by Arturo Carabias
Martin Pacesa @martinpacesa.bsky.social · 21/09/2026
ʙɪɴᴅᴄʀᴀꜰᴛ2 is out, and we're not waiting for the paper. The full code drops today, free for academic and industry use. We're releasing it early so you can start designing right now, and bring its full power to the current Adaptyv competition. github.com/PacesaLab/Bi...
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David Bikard @dbikard.bsky.social · 21/09/2026
New paper from the lab, out in Nature Microbiology. We ran CRISPRi screens to ask what genes E. coli needs in order to live in a gut and what this can tell us about the gut environment itself. doi.org/10.1038/s41564-026-02471-8
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Malcolm White @mfwhite2.bsky.social · 21/09/2026
New preprint from PhD student Yu Sun. TSR1 is a TIR effector specialised for CRISPR defence. It is an obligate dimer activated by cA3 and degrades its own activator using a ring nuclease domain. Perhaps the first confirmed dimeric TIR effector? www.biorxiv.org/content/10.6...
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paveltomancak.bsky.social @paveltomancak.bsky.social · 20/09/2026
21627 applications. Nothing to celebrate here. Impossible to evaluate fairly & safely. Neither the science (too diverse & possibly LLM generated) nor the soft criteria (likely LLM generated). Without an interview stage - a security risk! marie-sklodowska-curie-actions.ec.europa.eu/whats-new/ne...
marie-sklodowska-curie-actions.ec.europa.eu
MSCA Postdoctoral Fellowships 2026 receives record number of applications
The 2026 call has attracted considerable interest from the research community with 21,627 applications submitted.
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Reposted by Arturo Carabias
EMBL @embl.org · 09/09/2026
Congratulations, Julia Mahamid! The EMBL scientist has been elected to Leopoldina, the German National Academy of Sciences, in recognition of her outstanding contributions to the field of structural cell biology. Learn more: www.embl.org/news/awards-...
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Reposted by Arturo Carabias
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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Reposted by Arturo Carabias
Jack Bravo @jpkbravo.bsky.social · 03/09/2026
…and in other great news, our lab has also been awarded an ERC Starting Grant! 🥳 Very excited for what’s ahead and incredibly grateful to my team, collaborators, and everyone who has supported us along the way.
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Leonie Anton @leonieanton.bsky.social · 03/09/2026
I am excited to share that I will start my group @embl.org in Grenoble in February 2027, where we will investigate host-pathogen interactions using in situ cryo electron microscopy🦠❄️🔬! I am recruiting PhD students through the current open call of the EMBL PhD Program: www.embl.org/about/info/e...
embl.org
Anton Group – Cellular structural biology of host-pathogen interactions
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Irma Querques @irmaquerques.bsky.social · 25/08/2026
🎉 Our first paper from the Querques lab is out! We uncover the molecular checkpoints controlling cut-and-paste transposition by CRISPR-associated transposons. Congrats to Mateusz & the whole team! 🧬 www.nature.com/articles/s41... @univie.ac.at @meduniwien.ac.at
nature.com
Transposon end recognition and excision mechanisms of type I-F CRISPR-associated transposases - Nature Communications
CRISPR-associated transposons mediate RNA-guided DNA integration, but the molecular basis of transposase function remains poorly understood. Here, the authors uncover the mechanism of a highly active ...
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Yuping Li @yuping-li.bsky.social · 03/09/2026
We are thrilled and grateful that our project is funded by #ERCStG via @erc.europa.eu . This will allow us to uncover how the widespread jumbophage killer sensor recognizes the invasion of phiKZ-like jumbophages, which form fascinating vesicle & nucleus compartments during infection.
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Inga Songailiene @ingasongailiene.bsky.social · 03/09/2026
Great news, congrats! 👍🥳
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 03/09/2026
We got an ERC StG! 🥳🎉 Huge thank you to all the people who helped us get here. Five years to explore some Qs we’re very excited about! 🧬🔬
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Inga Songailiene @ingasongailiene.bsky.social · 03/09/2026
Happy to share our review article on CRISPR-Cas spacer aquistion "Building CRISPR immunity: evolution and mechanisms of spacer acquisition". 🎏 It was a great pleasure to contribute to it! www.sciencedirect.com/science/arti...
sciencedirect.com
Building CRISPR immunity: evolution and mechanisms of spacer acquisition
CRISPR–Cas systems in prokaryotes serve as adaptive immune systems that neutralize phage infections through RNA-guided nucleases. Immunization is achi…
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Reposted by Arturo Carabias
Kotaro Chihara @kochihara.bsky.social · 20/04/2026
Happy to share our new work on how phages escape bacterial immunity. We show that a phage homing endonuclease drives segmental amplification of anti-defense genes, pointing to a versatile and rapid mode of adaptation. www.nature.com/articles/s41... #PhageSky #MicroSky
nature.com
Phage homing endonuclease amplifies anti-defense genes to evade bacterial immunity - Nature Communications
Phages employ diverse counter-defense strategies to overcome bacterial immune systems. Here, the authors reveal that the phage homing nuclease SegB facilitates immune evasion by promoting the segmenta...
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Sternberg Lab @sternberglab.bsky.social · 03/08/2026
Out now! In collaboration with Hiroshi Nishimasu's lab, we uncover how a dual reverse transcriptase immune system builds double-stranded DNA from both RNA and protein templates. www.cell.com/cell/abstrac... Previous thread for the preprint: bsky.app/profile/ster...
cell.com
Coordinated RNA- and protein-templated synthesis of double-stranded DNA by a dual reverse transcriptase immune system
Bacterial reverse transcriptases defend against viruses, yet how their DNA products stop infection remains unknown. Bacteriophage inhibition of a host recombination enzyme activates the DRT3 defense s...
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Sofia Luengo-Woods @sluengo.bsky.social · 30/07/2026
We’re so excited to share our new paper, where we tackle the wealth of structural and functional diversity of anti-phage sensors across bacteria (1/6)
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Evgenii Protasov @evgenii-protasov.bsky.social · 30/07/2026
In situ #CryoEM structures of rice photosystem supercomplexes #photosynthesis #plants #StructuralBiology @nature.com www.nature.com/articles/s41...
nature.com
In situ structures of plant photosystem supercomplexes - Nature
The cryo‑EM structure of the Oryza sativa photosystem II–light harvesting complex II supercomplex in its native membrane reveals the intact plant photosystem architecture, retaining physiologically re...
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Reposted by Arturo Carabias
Pereda Lab @peredalab.bsky.social · 28/07/2026
Happy to share our latest paper! www.science.org/doi/10.1126/... We visualized by cryo-EM how a disease-causing anti-HPA-1a antibody binds to integrin αIIbβ3 and locks it in an inactive state Great colab with Coert Margadant’s lab & groups at Osaka Univ, Sanquin, CNB-CSIC, ISBG Details below… 1/9
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Pereda Lab @peredalab.bsky.social · 28/07/2026
📢Grateful to institutions that made this work possible: ➡️Landsteiner Foundation for Blood Transfusion Research ➡️MICIUN AEI and ERDF @ageinves.bsky.social ➡️Instruct-ERIC @instruct-eric.bsky.social for access to cryo-EM & imaging analysis @cryoemcnbcsic.bsky.social @instructi2pc.bsky.social (9/9)
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Pereda Lab @peredalab.bsky.social · 28/07/2026
In this manner, the Fab not only creates steric hindrance during extension, but it likely prevents the initial movements, acting as a lock!. Hence, we named it the “His-Tyr lock” 🔒 (7/9)
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Pereda Lab @peredalab.bsky.social · 28/07/2026
One key contact occurs between H117-Y118 of the antibody heavy chain contact the disulfide bridge C473-C503 of the I-EGF2. This disulfide is the pivoting point between the I-EGF1 and I-EGF2 during αIIbβ3 extension and activation… (6/9)
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Pereda Lab @peredalab.bsky.social · 28/07/2026
Fab 26.4 contacts not only the PSI domain, but also the I-EGF1 and I-EGF2 domains. The interactions with the I-EGF1/2 domains are key to understand how Ab 26.4 prevents integrin activation … (4/9)
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Pereda Lab @peredalab.bsky.social · 28/07/2026
To answer this question, we solved the cryo-EM structure of the Fab fragment of 26.4 bound to αIIbβ3. We found integrin aIIbb3 in the complex is in a bent-closed (i.e. inactive) state. How does the antibody stabilized this inactive conformation? … (3/9)
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Pereda Lab @peredalab.bsky.social · 28/07/2026
Maternal anti-HPA1a antibodies recognize Leu33 in the PSI domain of β3, causing fetal/neonatal alloimmune thrombocytopenia (FNAIT) One such antibody, named 26.4, blocks αIIbβ3 from binding fibrinogen after thrombin stimulation; a key step in clot formation. How does 26.4 bind the integrin?… (2/9)
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Basil Greber @bjgreber.bsky.social · 24/07/2026
Happy that our most recent paper on nucleotide excision repair mechanisms has now been published in Science Advances. This project was led by @natalia-mg.bsky.social and @callumhaste.bsky.social and focused on visualising early steps of the NER process by #cryoEM. www.science.org/doi/10.1126/...
science.org
Visualization of stepwise derepression of TFIIH in global genome nucleotide excision repair
Cryogenic electron microscopy captures nucleotide excision repair complexes assembling on damaged DNA templates.
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cryoEM papers @cryoempapers.bsky.social · 18/07/2026
High-resolution cryo-EM structure of integrin αIIbβ3 bound to disease-causing maternal HPA-1a antibody that blocks integrin activation pubmed.ncbi.nlm.nih.gov/42467762/ #cryoEM
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Luuk Loeff @lloeff.bsky.social · 14/05/2026
Happy to share our latest pre-print on the Druantia defense system. We find that Type III Druantia uses a cooperative helicase-nuclease mechanism to sense and degrade replication-associated forked DNA structures. www.biorxiv.org/content/10.6... A🧵
biorxiv.org
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Rafal Mostowy @rafalmostowy.bsky.social · 15/07/2026
PhD opening in my lab @jagiellonskiuni.bsky.social: using AI to predict how phage enzymes break down bacterial capsules — joint work with ML group GMUM and Zuzanna Drulis-Kawa's phage lab (Wrocław), spanning genomics, AI & evolution. mostowylab.com/job-phd-ai-d... Deadline: 15 August 2026
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Cahir O'Kane @cahirokane.bsky.social · 17/07/2026
Another amazing beast in the zoo of bacterial anti-phage defences
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Guillermo Montoya @guillermo-montoya.bsky.social · 16/07/2026
Tremendous bluesky tutorial by @arturocdr.bsky.social explaining our recent paper in colab with @rafomics.bsky.social enjoy it!!!
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
++ For a deeper dive into the mechanism, @arturocdr.bsky.social has a fantastic thread, including a beautiful animation of the Retron IX ring! 👇💍🔥 bsky.app/profile/artu...
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
10/10 Finally, HUGE congrats to co-firsts @arturocdr.bsky.social & Ruiliang Zhao 💪 & to all the other amazing co-authors who made this happen! May the (Retron IX) force be with you ⚔️ www.biorxiv.org/content/10.6...
biorxiv.org
A DNA-scaffolded Retron Ring Mediates Antiphage Immunity
Retrons are a diverse family of bacterial defence systems that couple reverse transcriptase (RT) activity to antiphage immunity by producing multicopy single-stranded DNA (msDNA). Yet, the molecular m...
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Reposted by Arturo Carabias
Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
19/10 Exciting to see these beautiful complementary studies alongside ours. Check them out! 🔥� 1️⃣ Grace Hibshman (@nogaleslab.bsky.social) + @seth-shipman.bsky.social labs: biorxiv.org/content/10.6... 2️⃣ @kotarokiga.bsky.social & H. Nishimashu labs: biorxiv.org/content/10.6...
biorxiv.org
Higher-order assembly of a type IX retron enables exploitation for designer antimicrobials
Bacterial defense systems provide a rich reservoir for biotechnological innovation. Retrons are tripartite abortive infection systems that detect phage invasion using reverse-transcribed DNA (msDNA), ...
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
8/10 Why sense B14T? 🤔 Speculation: rec-like nucleases may help phages repair/recombine to escape DNA-targeting immunity. Retron IX could act as a safeguard, detecting phages equipped to evade these defenses. Note it often co-occurs with DNA-targeting systems...
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
7/10 Our model 🧬👇 🔴OFF: RT-synthesized DNA scaffolds the ring and restrains the toxic RNase. 🟢ON: phage nucleases cut msDNA → ring collapses → RNase fires → host tRNAs shredded → infection blocked! 🛡️
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
6/10 Unleashed, the HEPN RNase cleaves host tRNAs indiscriminately at the anticodon loop ✂️ Protein synthesis stops & phage replication is halted, a strategy shared by many antiviral systems💥
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
5/10 Escaper analysis revealed the trigger: a phage-encoded nuclease (B14T) B14T snips the msDNA ✂️, the ring collapses 💥, and the RNase is released ⛓️‍💥. But what does it target?
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
4/10 In fact, early on we joked that the repeating subunits looked like Star Wars TIE fighters 🚀 Note the HEPN catalytic pocket sits exactly where the laser cannons fire... "Convergent evolution"!? 😏⚔️
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 16/07/2026
3/10 CryoEM revealed an unexpected supramolecular ring, with HEPN dimers lining its inner rim, held inactive by the DNA-scaffold🔒 I imagine a fleet of "flying saucers" patrolling the cytoplasm, cannons armed & ready to fire... 🛸👽
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