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.

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…

meetings.embo.org

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.

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...

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

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...

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.

nature.com

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)

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...

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. 🔬✨

Le Monde@lemonde.fr · 3w ago

Plongée dans le monde fascinant de micro-organismes unicellulaires doués d’intelligence

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...

bioRxivpreprint@biorxivpreprint.bsky.social · 4w ago

Engineering chromatin to encode transcriptional immune memory in Arabidopsis https://www.biorxiv.org/content/10.64898/2026.09.10.750729v1

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...

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.

marie-sklodowska-curie-actions.ec.europa.eu

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-...

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.

quantamagazine.org

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

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

Baukje Hoogenberg@baukjeje.bsky.social · 4w ago

Do you want to label the nuclear envelope? Do you work on a non-model species? Try Concanavalin A! We tested ConA on various species across the eukaryotic tree and find it is a very useful ExM-compatible marker for the NE and ER. Read all about it in our preprint: www.biorxiv.org/content/10.6...

🧬🔬 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... 🧵👇

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 ...

science.org

🚨 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 🧵⬇️

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...

biorxiv.org

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 :-)

bioRxiv Genetics@biorxiv-genetic.bsky.social · last mo.

A developmental switch in the piRNA pathway ensures stage-specific transposon silencing https://www.biorxiv.org/content/10.64898/2026.08.28.747770v1

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

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.

nature.com

Erik van Nimwegen@erikvannimwegen.bsky.social · last yr.

Here it is! Bonsai. Now there is really no more excuse for using t-SNE/UMAP. Bonsai not only makes cool pictures of your data. It actually rigorously preserves its structure. No tunable parameters. Incredible work by @dhdegroot.bsky.social. I'm so excited about this! www.biorxiv.org/content/10.1...

Who needs chromatin anyway...? NOT THIS GUY! www.biorxiv.org/content/10.6... 1/n

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...

biorxiv.org

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/...

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

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

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...

nature.com

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/...

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...

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...

biorxiv.org

🚨the latest from the lab! 😃👇🏻 www.science.org/doi/10.1126/...

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.

science.org

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...

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!

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.

nature.com

Jesse Engreitz@jengreitz.bsky.social · 2mo ago

Update: scE2G is now online at Nature Genetics! Since the preprint, we added a new benchmark on a fully held-out CRISPR dataset. scE2G continues to show state-of-the-art performance, reinforcing that it generalizes well nature.com/articles/s41588-026-02695-8 1/

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. 🧵

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

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...

nature.com

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

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...

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...

bandi.unibo.it