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Arnau Sebé-Pedrós

@arnausebe.bsky.social
1.8K followers 950 following 121 posts

Group leader CRG; Associate Faculty ToL Sanger Institute. Genome regulation, chromatin, cell types, and evolution. www.sebepedroslab.org

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Reposted by Arnau Sebé-Pedrós
Alex de Mendoza @alexdemendoza.bsky.social · 14h
It's live! The next @embo.org #EvoChromo meeting will take place next year October in St Feliu de Guíxols (Spain), check it out here: meetings.embo.org/event/27-chr.... It's been great to co-organise with @dodonova-sveta.bsky.social @kellervalsecchi.bsky.social @cedricfeschotte.bsky.social & Nick I.
meetings.embo.org
Chromatin evolution from molecules to genomes
Technological advances over the past decade have enabled genome-wide mapping of chromatin organization across diverse organisms at unprecedented resolution. These studies have uncovered both conserve…
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Reposted by Arnau Sebé-Pedrós
Casey Dunn @caseywdunn.bsky.social · 25/08/2026
My new book, Phylogenetic Biology, is now published. Available online for free at dunnlab.org/phylogenetic... . Physical copies can be purchased at shop.lightningsource.com/b/085?params... or your favorite bookstore.
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Casey Dunn @caseywdunn.bsky.social · 05/10/2026
Interested in joining our lab (dunnlab.org) and YIBS as a postdoc? I'm looking for someone to work on siphonophores, diversity in the open ocean, or natural history. If that's you, please reach out this week to discuss a nomination for the Donnelley Postdoc Fellowship - yibs.yale.edu/donnelley-fe...
dunnlab.org
The Dunn Lab
Casey Dunn's laboratory in the Department of Ecology and Evolutionary Biology at Yale University.
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Archaea Biology Vienna @archaea-vienna.bsky.social · 01/10/2026
Our paper on the dynamics of Asgard archaea (Promethearchaeota) is now out in Nature! Huge thanks to the reviewers for helping make the manuscript stronger. www.nature.com/articles/s41... Two “Lokis” stained for Lokiactin (FastAct, magenta), reaching toward each other to celebrate 🎉 #archaea
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 25/09/2026
Next LED here www.archbishopofcanterbury.org/lambeth-palace?
archbishopofcanterbury.org
Lambeth Palace | Archbishop of Canterbury
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Reposted by Arnau Sebé-Pedrós
Michael Hiller @hillermich.bsky.social · 23/09/2026
Happy to share results of the @bat1kgenomes.bsky.social phase 1, providing reference genomes covering 21 bat families. New insights into bat phylogeny, ancestral genome reconstruction, European origin & ancestral echolocation. Great work by a team of 100+ colleagues www.nature.com/articles/s41...
nature.com
Reference genomes and fossils revise bat family phylogeny and biogeography - Nature
An updated phylogeny of bats is presented, based on new genome assemblies and many ancient fossils and including all known bat families.
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Maya Voichek @mayavoichek.bsky.social · 24/09/2026
Super excited to share my postdoctoral work at @imbavienna.bsky.social @viennabiocenter.bsky.social - We discovered that some retrotransposons, or "jumping genes" 🧬, are able to spread from cell to cell via a new viral infectivity route. A short thread: 🧵👇 (1/7)
AI-generated illustration of the soma-to-germline transmission of retrotransposons described in our work
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Centre de Regulació Genòmica (CRG) @crg.eu · 21/09/2026
The CRG's 2027 PhD call is now open! We have multiple, fully-funded positions across fifteen different research groups. Successful candidates will spend four years pursuing cutting-edge questions at our labs in Barcelona. Deadline is 22 November. www.crg.eu/en/content/t...
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Omaya Dudin 𓂆 ¦🍉¦🦠¦🔬¦ @dudinlab.bsky.social · 21/09/2026
Must admit, ever since I was a kid, I’ve dreamt of seeing microscopy images of #protists in @lemonde.fr Today, protists are everywhere, and several images were taken by the team. And seeing #ichthyosporeans there too?! 🥹 One step closer to showcasing the beauty of the invisible microbial world. 🔬✨
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Jake Harris @c-jake-harris.bsky.social · 18/09/2026
Very excited to share the new preprint from our lab on transcriptional memory and immune priming! Herculean effort from first authors Linhao and Jenia. Epigenome-engineering experiments provide evidence that H3K4me3 plays a causal role!  doi.org/10.64898/202...
doi.org
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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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Pawel Burkhardt @pawelburkhardt.bsky.social · 16/09/2026
Lovely to see several pieces of our ctenophore work featured in this beautiful new story from @quantamagazine.org 🪼 Great piece by @mstarling.bsky.social, also featuring work by @stevehaddock.bsky.social, @arnausebe.bsky.social & @hejnol.bsky.social. www.quantamagazine.org/ctenophores-...
quantamagazine.org
Ctenophores Aren’t Just Beautiful. They’re Biological Wonders. | Quanta Magazine
Comb jellies are helping answer fundamental questions in biology, from how the earliest nervous systems evolved to how bioluminescence works.
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Arnaud Krebs @arnaudkr.bsky.social · 14/09/2026
your starter pack for Single Molecule Genomics! Why you should do it (or not) - How you should do it. Collective effort with @vram142.bsky.social @stirlingchurchman.bsky.social @naltemose.bsky.social A Stergachis M Stadler W Greenleaf @embl.org rdcu.be/PmzSEV529GRa
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Omaya Dudin 𓂆 ¦🍉¦🦠¦🔬¦ @dudinlab.bsky.social · 11/09/2026
Very proud of the team, led by @baukjeje.bsky.social & @fmikus.bsky.social To all of you doing #Expansion #Microscopy #UExM Try Concanavalin A. Its cheap, easy to use & labels the #nuclear #Envelope @moorefound.bsky.social @embl.org @sciencesunige.bsky.social @erc.europa.eu @snsf.ch
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Philippe Batut @philippebatut.bsky.social · 10/09/2026
🧬🔬 Why are enhancers transcribed and how does that impact gene regulation? I’m really excited to share our new paper in @science.org showing that noncoding RNAs control the timing of gene activation in embryos. With Mike Levine #ScienceResearch @columbiamed.bsky.social A few highlights below... 🧵👇
science.org
Noncoding transcription controls the developmental dynamics of long-range gene regulation
The genomic regions regulating gene expression are often themselves transcribed into a variety of noncoding RNAs (ncRNAs). However, the regulatory roles of this noncoding transcription remain largely ...
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Thibaut Brunet @thibautbrunet.bsky.social · 02/09/2026
🚨 New preprint alert! 🚨 Choanoflagellates reorganize their global cytoskeletal architecture within seconds to explore confined microspaces. This is the main PhD work of the amazing @maitefreired.bsky.social www.biorxiv.org/content/10.6... A tread 🧵⬇️
biorxiv.org
Rapid repurposing of microvillar content drives a flagellate-to-amoeboid switch in the closest relative of animals
Animal cells extensively remodel their cytoskeleton during differentiation and can notably switch between two major motility modes: flagellum-based swimming and actin-based crawling. We previously sho...
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 04/09/2026
Bravo @luisjagago.bsky.social! Well deserved.
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Peter Andersen @germline.bsky.social · 29/08/2026
We watched piRNAs and transposons across development, saw them dance tightly and wrote a paper about it. It's so cool to see it online and we will make a thread about it all very soon. Stay tuned :-)
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Erik van Nimwegen @erikvannimwegen.bsky.social · 21/08/2026
Remember this? bsky.app/profile/did:... Rigorous visualization of the structure in your high-dimensional data. Fantastic work by @dhdegroot.bsky.social With help of the reviewers of Nat Biotech it is now updated, extended an officially published here: www.nature.com/articles/s41... 1/n
nature.com
Bonsai reconstructs tree representations for distortion-free visualization and exploration of high-dimensional data - Nature Biotechnology
High-dimensional data are visualized through representation on tree structures.
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Tobias Warnecke @tobiaswarnecke.bsky.social · 22/08/2026
Who needs chromatin anyway...? NOT THIS GUY! www.biorxiv.org/content/10.6... 1/n
biorxiv.org
Chromatin is dispensable for bacterial life
Inside cells, DNA is intimately associated with proteins, forming chromatin. The protein constituents of chromatin vary across the tree of life: histones are the principal building blocks of chromatin...
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Darrin T. Schultz @dts.bsky.social · 19/08/2026
Our new paper in Science Advances asks how animals' genomes have changed since their origin from a common ancestor over 600 million years ago, and what patterns in their DNA have arisen in the churn of speciation and extinction. www.science.org/doi/10.1126/...
Five-panel diagram explaining fusion-with-mixing in chromosome evolution. Red and blue represent two different ancestral chromosomes throughout.

A, Fusion-with-mixing: a red chromosome and a blue chromosome fuse into one half-red, half-blue bar. Down the page, successive rows show inversions, drawn as X-shaped crossings between rows, progressively interleaving the two colors until the bottom bar is finely striped. A widening gray wedge labeled Entropy runs alongside an arrow marked Time plus evolution, pointing down.

B, Independent regulation: two separate chromosomes, one red and one blue. In each, a regulatory element, drawn as an oval, acts by an arrow on a gene within its own chromosome only.

C, FWM and novel regulation: on a fused, mixed chromosome, a red gene and a blue gene now sit next to each other across an inversion breakpoint. Red and blue arrows show regulatory elements reaching across it to act on the other chromosome's gene.

D, Regulatory entanglement: an extensively mixed chromosome, finely striped. Below it, a row of alternating red and blue genes is linked by a dense web of crossing curved arrows, so many overlapping regulatory connections that unmixing the chromosome would break them.

E, Emergence of entangled loci: a five-species phylogeny. A red and a blue chromosome fuse at an ancestral node, and helical icons on later branches mark continued mixing. Colored boxes mark four new red-blue regulatory interactions arising after inversions. Species A keeps its two chromosomes separate. In species B through E, the two earliest interactions, cyan boxes 1 and 2, are present in every descendant lineage, while later ones, yellow 3 and magenta 4, appear in fewer.
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Darrin T. Schultz @dts.bsky.social · 19/08/2026
I'm thrilled to share that I've started as an Assistant Professor in Biological Sciences and the Oceans Research Center at Lehigh University! I'm building a group in evolutionary genomics to study the origin of animals, and to use those concepts to better understand human disease. More: evogeno.me
Darrin Schultz, a man with curly dark hair and tortoiseshell glasses, smiling at the camera in a brown blazer over a blue patterned shirt with sunglasses hooked on the collar, standing in front of a stone wall.
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Kranzusch Lab @kranzuschlab.bsky.social · 12/08/2026
The shared principles of human and bacterial antiviral immunity An honor to highlight remarkable discoveries from many labs over the past 12 years that unite previously disparate fields of how animal cells and prokaryotes defend against viruses. www.nature.com/articles/s41... rdcu.be/fzwyB
nature.com
Shared principles of human and bacterial antiviral immunity - Nature
The Review describes shared ancient, conserved mechanisms between human antiviral immunity and bacterial anti-phage systems, outlining universal principles of pathogen sensing, signalling and effector...
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Gulnara Tagirdzhanova @metalichen.bsky.social · 11/08/2026
Our study on giant transposons Starship 🚀🧬 in the genome of the lichen fungus Xanthoria is now out in @pnas.org! What did we find out about Starships in #lichen fungi? 👇Updated thread below 🖥️ 🧪 🦠 🧫 #SymbioSky 1/6 www.pnas.org/doi/10.1073/...
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mara lawniczak @marakat.bsky.social · 10/08/2026
new preprint from our group led by Talleh Almelli -- important for folks doing single cell on malaria parasites or other organisms with hyperdiverse gene families. www.biorxiv.org/content/10.6...
biorxiv.org
Evaluating the impact of a sample-matched reference genome on single-cell transcriptomic inferences in Plasmodium falciparum
Background Plasmodium falciparum field isolates exhibit genomic variation, including copy number variation and sequence divergence. In contrast, the P. falciparum 3D7 reference genome (Pf3D7) was deri...
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Marc A. Marti-Renom @mamartirenom.bsky.social · 08/08/2026
🚨the latest from the lab! 😃👇🏻 www.science.org/doi/10.1126/...
science.org
3D genome organization in tissue regeneration involves long-range chromatin loops
Chromosome conformation analysis in Drosophila wing discs reveals the requirement of specific meta-loops during regeneration.
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Isabel Almudi @isabelalmudi.bsky.social · 07/08/2026
What happens when evolution adds an extra pair of eyes? Male mayflies evolve an extra pair of dorsal compound eyes, the Turbanate eyes, thought to help males detect females during mating swarms. we have investigate how this remarkable evolutionary novelty develops. www.biorxiv.org/content/10.6...
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 05/08/2026
On it! Thank you Claudia
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 05/08/2026
Great to see this out. Congrats @randersson.bsky.social and team!
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Robin Andersson @randersson.bsky.social · 05/08/2026
Thrilled to share that our scE2G paper is now published in Nature Genetics! www.nature.com/articles/s41... scE2G predicts enhancer-gene regulatory interactions from single-cell data with state-of-the-art performance. Amazing work led by @mayayayas.bsky.social and @613weilin.bsky.social!
nature.com
Mapping enhancer–gene regulatory interactions from single-cell data - Nature Genetics
scE2G is a family of models that predict enhancer–gene regulatory interactions from single-cell datasets and enable mapping of these interactions across diverse cell types and tissues.
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
Thank you Alejandro!
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
Thank you Margarida!
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Alex de Mendoza @alexdemendoza.bsky.social · 03/08/2026
Sailing in @biorxivpreprint.bsky.social ready for summer, our study on the iconic Portuguese man o' war 🪼 is out: www.biorxiv.org/content/10.6.... We use (epi)genomics to understand a critter that fascinates me since childhood. Massive team effort with @obog.bsky.social, Cummins and Neely groups. 🧵
the indo-pacific bluebottle (Physalia utriculus)
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
Thanks Max!
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
Thanks to all coauthors: Julen Mendieta, Ewa Księżopolska, Jim Renema, our beloved proteomics experts Cristina Chiva and Eduard Sabidó @crg.eu, and David Lara, with whom this whole iChIPing adventure of weird species began back when we were young and full of optimism at @weizmann.ac.il
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
Final thoughts: this work was possible thanks to the protistologists who discovered and cultured these species. Many key cultures are now lost or accumulating mutations after decades growing. Sustained efforts will be needed to reverse this and enable future evolutionary cell biology studies.
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
The next challenge is to move from chromatin states to their effectors: identifying the proteins that read, implement and connect these states to reveal how changes in chromatin factors shaped the evolution of genome regulation. @seanamontgomery.bsky.social is on it!
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
H3K79 methylation is the most peculiar case: in some species associated with active transcription, whereas in others linked to repression. In Acanthamoeba even K79me1/2/3 have different associations, possibly explained by the evolution of different Dot1 paralogs.
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
In contrast, repressive chromatin states varied substantially. Different lineages used distinct combinations of H3K9, H3K27 and H3K79 methylations to mark silent genes and TEs. This may reflect the long evolutionary history of conflicts between eukaryotic genomes and parasitic genetic elements.
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
What we find? Active chromatin states are remarkably conserved, H3K4me and acetylations mark active promoters, while H3K36me3 tracks active gene bodies. The chromatin architecture of transcription runs deep in eukaryotic evolution.
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
Now we ask if these conserved marks have a conserved functional readout. We developed a multiplexed ChIP-seq method (iChIP2) to profile 12 marks across 12 species, including some of our favorite protists. In some cases, these represent the first chromatin landscapes for entire eukaryotic lineages.
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
A few years ago we showed that many histone post-translational modifications and the enzymes that deposit or remove them are ancient and broadly conserved across eukaryotes. www.nature.com/articles/s41...
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 03/08/2026
Happy to share the final version of our study on the evolution of chromatin states across eukaryotes, out today in @natgenet.nature.com Led by @crisnava.bsky.social and @seanamontgomery.bsky.social www.nature.com/articles/s41... Some highlights below
nature.com
Diversity and evolution of chromatin regulatory states across eukaryotes - Nature Genetics
This study introduces iChIP2, a low-input chromatin immunoprecipitation followed by sequencing method that profiles histone post-translational modifications (hPTMs) simultaneously across diverse eukar...
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Jay Shendure @jshendure.bsky.social · 31/07/2026
Thrilled to post thread re: new single-cell lineage of mouse embryo reconstructed w/ DNA Typewriter. One animal, zygote to late organogenesis (E13.5). Tree has 1,340,794 transcriptionally profiled, annotated tips (cells), 1,142,588 dated internal nodes, rooted at zygote 1/n
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RobertoFeuda @robertofeuda.bsky.social · 30/07/2026
We're hiring 4 postdocs at @unibo.it to study nervous system evolution. Seeking expertise in single-cell genomics, molecular or developmental biology in ctenophores, cnidarians, echinoderms, flies or human stem cells. 2+2 yrs contract. Deadline: 26 Aug. Please share! bandi.unibo.it/s/apos7/proc...
bandi.unibo.it
Procedura di valutazione comparativa per titoli e colloquio per il conferimento di n. 4 contratti di ricerca presso il Dipartimento di Scienze Biologiche, Geologiche e Ambientali - SSD BIOS-04/A - GSD...
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sandraduharcourt.bsky.social @sandraduharcourt.bsky.social · 30/07/2026
Open position in our lab for a research engineer. The applicant must hold a PhD in life sciences and have demonstrable experience in molecular biology and biochemistry. For more info: emploi.cnrs.fr/Offres/CDD/U...
emploi.cnrs.fr
Portail Emploi CNRS - Job offer - Research Engineer (M/F), genome stability, Institut Jacques Monod, Paris, France
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Varsha Mathur @varshamathur.bsky.social · 21/07/2026
So happy to share our new paper out now in @natmicrobiol.nature.com! We establish Pirsonia-Coscinodiscus as a model pathosystem and uncover how this tiny parasite infects and kills bloom-forming marine diatoms 🌊🦠 rdcu.be/fuQyF
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Darío Lupiáñez @dariloops.bsky.social · 21/07/2026
🚨 Job Alert - Please share 🙏 Interested in 3D gene regulation in development & evolution? 🤓🧬 💥 Our lab at @cabd-upo-csic.bsky.social is expanding! ✅ 4 years fully funded PhD position 💻🧪 Experimental or computational backgrounds welcome 👇 Details below #PhDPosition #PhDOpportunity #AcademicJobs
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 20/07/2026
The previous two: Cell type diversity in Stylophora www.cell.com/cell/fulltex... Facultative symbiosis in Oculina www.nature.com/articles/s41...
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Arnau Sebé-Pedrós @arnausebe.bsky.social · 20/07/2026
The third chapter in our coral single-cell trilogy is here. After mapping cell type diversity in Stylophora (Levy 2021) and exploring facultative symbiosis in Oculina (Levy 2025), we now uncover cell type-specific responses to heat stress. Find out more in @xgrau.bsky.social's thread below.
biorxiv.org
Cell-resolved transcriptional responses during heat-induced coral bleaching and recovery
Coral reefs depend on an intracellular symbiosis between cnidarian hosts and photosynthetic dinoflagellates that is disrupted by ocean warming, causing coral bleaching. Yet how these responses are dis...
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