3rd histone paper on my feed today!

Condensed chromatin domain structure and cohesin-constrained mobility assure independent transcription regulation for each domain! Also consistent with many previous studies. (4/n)

Euchromatin is mostly condensed⁉️ With @shiori-iida.bsky.social , We revealed the detailed structure of euchromatin using super-resolution imaging. Cohesin regulates the function of euchromatin via chromatin dynamics! (1/n)

One more movie! Using the RL algorithm (from pnas.org/doi/10.1073/...), @masaashimazoe.bsky.social analyzed our nucleosome tracking data and classified them by their mobility. Hotter color = faster motion (Slow🔵→ 🟢 → 🟡 → 🟠 Fast)

Our new preprint is out! We combined single-nucleosome imaging and 3D-SIM to reveal: 🔹 Euchromatin forms condensed domains, not open fibers 🔹Cohesin loss increases nucleosome mobility without decompaction 🔹Cohesin prevents neighboring domain mixing Full story & movies👇

Is euchromatin really “open”? Our new study @bioRxiv suggests otherwise. Using super-resolution imaging @shiori-iida.bsky.social‬ @masaashimazoe.bsky.social reveals: Euchromatin forms condensed domains in live cells. Cohesin constrains them and prevents domain mixing. www.biorxiv.org/cgi/content/...

📢 For all HaloTag lovers💙💚💛❤️💜🩶 we are excited to share that our work, in which we developed a new biotin-HaloTag ligand, is now published in @jcb.org! Full link here: rupress.org/jcb/article-...

New chapter of sex determination, with sharks and rays! Our study, utilizing embryonic samples from cooperative aquariums, revealed the ancient sex chromosome origin and unique sex determination potentials. Published today in PNAS www.pnas.org/doi/full/10.... #Squalomix

My #PhD defense work is on #Biorxiv! Link: biorxiv.org/content/10.110… Using single-molecul#imagingng, we showed that liquid-like BRD4-NUT condensates locally constrai#chromatinin vi#bromodomain-dependentnt crosslinking. I thank my supervisor, Prof. @kazu-maeshima.bsky.social, for his support!

We've just been awarded a grant to study the cellular basis of regeneration – to track the progenitors of sensory organs in the context of leg regeneration, in our favourite crustacean tinyurl.com/parhyale, based on live imaging and cell tracking. The project involves some cool collaborations... 1/3

Our new preprint 🧬🔗 www.biorxiv.org/content/10.1... BRD4-NUT forms liquid-like condensates that locally constrain nucleosomes via BRD4-mediated crosslinking— physical control of #chromatin by #LLPS transcription condensates. @semeigazin.bsky.social @katsuminami.bsky.social @masaashimazoe.bsky.social

🚨 Preprint alert 🚨 Excited to share our work on "Ab-trapping," an antibody artifact causing misleading peripheral ("rim") staining in imaging & genomics (IF, CUT&Tag, CUT&RUN). Antibodies fail to penetrate structures, accumulating at the periphery. A 🧵👇 doi.org/10.1101/2025...

This is a piece that I and @karsten-rippe.bsky.social discussing a lot, and a topic that is very close to my heart. The editors @naturerevgenet.bsky.social gave us the stage to do so, and the final version of our review is now available under this link: rdcu.be/erP1u A short thread follows 1/n

How do transcription compartments form — and does phase separation drive gene expression? I enjoyed discussing these questions with @akispapantonis.bsky.social a lot, and we put our thoughts together for @naturerevgenet.bsky.social, now out at rdcu.be/erP1u

Tools "Evidence suggests that acetyl-CoA metabolism is highly compartmentalized in mammalian cells. Yet methods to measure acetyl-CoA in living cells are lacking. Herein, we engineered an acetyl-CoA biosensor from the bacterial protein PanZ and circularly permuted green fluorescent protein (cpGFP)."

Very smart way to distinguish between eu/heterochromatin for single nucleosome tracking. "Replication-dependent histone labeling dissects the physical properties of euchromatin/heterochromatin in living human cells" From @kazu-maeshima.bsky.social lab www.science.org/doi/10.1126/...

Our new review paper is out@JMB!🧬 @katsuminami.bsky.social‬ @semeigazin.bsky.social‬ ‪@kakonakazato.bsky.social‬ discuss DNA accessibility in euchromatin and heterochromatin of live cells. Free access: authors.elsevier.com/a/1lHgb54HFZ... Also check our previous work: www.science.org/doi/10.1126/...

Losing the Y chromosome seems to make cancer cells more aggressive in men and the phenomenon may even spread between cells https://go.nature.com/3Zh7bs7

This Saturday's morning ☕ reading is two surprising new analyses of BRD4. First ever studies of full length BRD4 with intact nucleosomes find that it binds with nanomolar affinity even in the ABSENCE of acetylation. www.biorxiv.org/content/10.1... www.biorxiv.org/content/10.1...

1/ New preprint! How do transcription factors (TFs) use intrinsically disordered regions (IDRs) to find their target sites? www.biorxiv.org/content/10.1... #TranscriptionFactors #IDPs #SingleMolecule #Biophysics

‼️Last chance to join us in person for #EMBLSingleMolecule! Attend talks, network, socialise, and experience the atmosphere on the campus 🤩 🎫 Register by 3 Jun 👉🏼 http://s.embl.org/grg25-01-bl#EMBLSingleMolecule 🧬RNA processing 🧬Translation 🧬Transcription & chromatin regulation 🧬Method development 🧬Theory

Nucleoli as biomolecular bubble tea! Congrats to former Princeton ugrad Holly Cheng (now GS @MIT) ->Holly's senior thesis work, a close collab w Roggeveen Wang & @zs-biophys.bsky.social‬ &Stone. Come for the cool movies & stay for the viscoelasticity! www.pnas.org/doi/10.1073/pnas.2407423122

A night flight over France and Italy in the International Space Station.

I cannot believe I didn't post about dark sectioning! I can only blame my crazy travel schedule. Check out this amazing tool for background removal in fluorescence microscopy. An important new concept, not 'just another' denoising algorithm.

We’re #hiring, please share! A fully funded #postdoc position is available in my lab to work on DNA damage response mechanisms. Please get in touch with your CV if you are interested; closing date: 27th June 2025. More details here: candidate.hr-manager.net/ApplicationI...

I’m excited to announce that my paper describing non-canonical mitotic mechanisms in the early mouse embryo is out in @science.org ! (link at end of 🧵)

I am excited to share the latest paper from my lab where we leverage the selection bias of condensate-promoting oncofusions to uncover molecular rules governing condensate specificity and function. www.cell.com/cell/fulltex....

Excited our paper is out in Cell @cp-cell.bsky.social! 🧬⚡ DNA photo-crosslinking proteomics in living cells 🎯 Pinpoints protein-DNA interactions to single amino acids 🌎 Globally quantifies DNA binding for >1800 proteins at a timescale of minutes 🔗 www.cell.com/cell/fulltex... 🧵

Sharing our latest work tracking DNA damage inheritance by Live+QIBC www.nature.com/articles/s41.... Huge congrats to @apanagopoulos.bsky.social, M. Stout and all co-authors for this tour de force! Beautifully summarized by @s-j-aitken.bsky.social & E. Reilly www.nature.com/articles/d41...

Check out this 🧵 from @eimearlagan.bsky.social on our new Molecular Cell @cp-molcell.bsky.social paper! We show how the H3K27M Oncohistone reprograms chromatin in DMG, creating a specific dependency on CBX4/PCGF4-containing forms of cPRC1 👇

New @nature.com An ingenious way to track DNA replication patterns at the single-cell level that leads to cell heterogeneity and daughter cells that can potentially give rise to cancer www.nature.com/articles/s41...

Delighted to share that the results of my main postdoc project are now published in @nature.com 🔗 doi.org/10.1038/s415...

1/ Super excited to share my first preprint from @andersshansen.bsky.social Lab! We used MINFLUX to track chromatin (H2B-Halo and Fbn2 locus) at an unprecedented 200 μs, then combined it with SPT to span μs-minutes (H2B) or SPT & Super-Res Live-Cell Imaging (SRLCI) to span μs-hours (Fbn2)

(1/n) Thread @matteomazzocca.bsky.social @domenicnarducci.bsky.social Simon Grosse-Holz @jessematthias.bsky.social preprint Q: how does chromatin move? Using MINFLUX, SPT & SRLCI, we track chromatin dynamics across 7 orders of magnitude in time to provide answers www.biorxiv.org/content/10.1...

My dept in London at Imperial (Bioengineering) is recruiting a group leader at Professor level 🧑‍🎓 Please RT. It's a great place with world-class expertise in all sorts of biomedical & biological engineering topics like synthetic biology. It's also not in the USA. www.imperial.ac.uk/jobs/search-...

Another super paper came out this week from Amit Kohli and Laura Waller on Ring deconvolution microscopy. This one is fairly technical, but essentially it's a computational approach that lets you do deconvolution when there is a spatially varying PSF. www.nature.com/articles/s41...

Interested in chromatin architecture?
 Checkout our new method - PCP - that can map genome organization as multi-way interactions as well as nucleosome footprint and nucleosome spacing at very high resolution. www.biorxiv.org/content/10.1...

If you're a grad student or an undergrad interested in research I need to you listen to me very carefully. You cannot learn to write good research papers if you do not read good research papers. Stop asking LLMs to summarize papers for you.

Watching fission yeast divide is cool🦠. But showing it with a kymograph? Even cooler 😎, shows it all—mitosis, cell wall—packed into spatiotemporal magic🪄. Flattening time into 2D just makes it easier to understand. #FluorescenceFriday @pasteur.fr @pasteuredu.bsky.social #Microscopy #Microbiology🔬

Delighted to share our latest work deciphering the landscape of chromatin accessibility and modeling the DNA sequence syntax rules underlying gene regulation during human fetal development! www.biorxiv.org/content/10.1... Read on for more: 🧵 1/16 #GeneReg 🧬🖥️

📢 NIG Postdoc Fellowship Call! www.nig.ac.jp/nig/career-d... 🧬We’re seeking motivated postdocs to join our lab. 🔬We study chromatin behavior in living cells using advanced live-cell imaging and quantitative analysis: www.science.org/doi/10.1126/... doi.org/10.2183/pjab... Interested? Please apply!

Now online! Extrachromosomal DNA replication and maintenance couple with DNA damage pathway in tumors

🧬My retrospective chromatin review is out @Proc Jpn Acad: doi.org/10.2183/pjab... The textbook view of #chromatin as 30-nm fibers is fading. A new paradigm: chromatin forms #liquid-like domains—locally dynamic, yet globally stable at the chromosome level (viscoelastic)—supporting genome function. ✨

Researchers pinpoint the genes responsible for the final three pea traits studied by Gregor Mendel more than 160 years ago https://go.nature.com/3EC3eqT

Now online @narjournal.bsky.social academic.oup.com/nar/article/...

Here is-🥳🥳😇 tremendous effort by @palmrinmoy.bsky.social brilliantly supported by @tamas-schauer.bsky.social &super help by federico,iliya,tsune,adam,@mamartirenom.bsky.social Very happy to see this come to fruition- Look forward to feedback from colleagues ! More 👉 www.cell.com/cell/fulltex...

First year Tetrad student Kate Zhou published her work as a tech in the Narlikar lab. Congrats!

Nature research paper: Histone H1 deamidation facilitates chromatin relaxation for DNA repair https://go.nature.com/42iGjda

Nice to see that my interview (or the first part of it) with Paul Nurse about the state and future of biology has accrued 1.7K views in just a few days. I, for one, found it very illuminating! www.youtube.com/watch?v=57UJ...

I’m pleased to announce that I have now officially started my research group at the University of Dundee, UK. My laboratory focus on how transcription factors orchestrate epigenetic reprogramming in mammalian embryos.