Kazuhiro Maeshima
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kazu-maeshima.bsky.social
Kazuhiro Maeshima
@kazu-maeshima.bsky.social
#Chromatin biologist/biophysicist @NIG & SOKENDAI in Japan.
Chromatin is very dynamic and flexible, but NOT regular!!! 🧪🧬🔬

My career and work: http://bit.ly/2CuF4L5 
Lab HP: https://bit.ly/3F1a8nk
YouTube Seminar: https://bit.ly/4fYZiOj
Pinned
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/...
Reposted by Kazuhiro Maeshima
Super-resolution single-molecule fluorescence combined with quantitative phase contrast. This powerful combo enables ~0.05 nm optical path difference detection, < 20 nm resolution, and continuous live-cell imaging with digital staining
doi.org/10.1101/2025...
#Microscopy #CellBiology #OI-DIC #SMLM
A correlative quantitative phase contrast and fluorescence super-resolution microscope for imaging molecules in their cellular context
Fluorescence microscopy has been widely used to reveal the spatial distribution of specifically labeled molecules, but it is blind to cellular context. Quantitative phase contrast microscopy (QPC) pro...
doi.org
October 16, 2025 at 11:57 PM
Reposted by Kazuhiro Maeshima
3rd histone paper on my feed today!
Our new preprint is out@bioRxiv: www.biorxiv.org/content/10.1...
@masaashimazoe.bsky.social et al. reveal that linker histone H1 acts as a liquid-like glue to organize chromatin in living cells. 🎉 Fantastic collab with @rcollepardo.bsky.social @janhuemar.bsky.social and others—huge thanks! 🙌 1/
September 11, 2025 at 9:11 PM
Reposted by Kazuhiro Maeshima
Condensed chromatin domain structure and cohesin-constrained mobility assure independent transcription regulation for each domain!
Also consistent with many previous studies.
(4/n)
August 29, 2025 at 10:57 AM
Reposted by Kazuhiro Maeshima
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)
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/...
August 28, 2025 at 8:43 AM
Reposted by Kazuhiro Maeshima
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)
August 29, 2025 at 12:36 AM
Reposted by Kazuhiro Maeshima
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/...
August 28, 2025 at 3:11 PM
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/...
August 28, 2025 at 4:18 AM
Reposted by Kazuhiro Maeshima
📢 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-...
July 23, 2025 at 10:10 AM
Reposted by Kazuhiro Maeshima
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
July 23, 2025 at 5:07 AM
Reposted by Kazuhiro Maeshima
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!
July 16, 2025 at 2:21 PM
Reposted by Kazuhiro Maeshima
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
July 13, 2025 at 2:55 PM
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
July 10, 2025 at 4:21 AM
Reposted by Kazuhiro Maeshima
🚨 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...
Ab-trapping - a peripheral staining artifact in antibody-based microscopy and genomics
Antibodies (Ab) are essential for detecting specific epitopes in microscopy and genomics, but can produce artifacts leading to erroneous interpretations. Here, we characterize a novel artifact, Ab-tra...
doi.org
April 14, 2025 at 8:08 PM
Reposted by Kazuhiro Maeshima
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
June 19, 2025 at 4:37 PM
Reposted by Kazuhiro Maeshima
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
June 19, 2025 at 6:28 PM
Reposted by Kazuhiro Maeshima
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)."
A genetically encoded fluorescent biosensor for visualization of acetyl-CoA in live cells
Smith et al. engineered a “turn on” fluorescent biosensor (dubbed “PancACe”) for acetyl-CoA from a fusion of the proteins PanZ and circularly permuted GFP. PancACe measures changes in acetyl-CoA level...
www.cell.com
June 19, 2025 at 4:58 PM
Reposted by Kazuhiro Maeshima
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/...
June 18, 2025 at 8:13 AM
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/...
June 18, 2025 at 6:20 AM
Reposted by Kazuhiro Maeshima
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
Cancer more deadly when tumours lack Y chromosomes — and the loss could be contagious
Losing the Y chromosome seems to make cancer cells more aggressive in men and the phenomenon may even spread between cells.
go.nature.com
June 4, 2025 at 3:14 PM
Reposted by Kazuhiro Maeshima
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...
The BRD4-nucleosome interaction is enhanced modestly and non-selectively by histone acetylation
BRD4 regulates gene transcription in complex eukaryotes, in part through the binding of its tandem bromodomains to acetylated lysine residues found in histones and transcription factors. Despite pharm...
www.biorxiv.org
May 31, 2025 at 1:54 PM
Reposted by Kazuhiro Maeshima
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
Intrinsically disordered regions facilitate Msn2 target search to drive promoter selectivity
Transcription factors (TFs) regulate gene expression by binding specific DNA motifs, yet only a fraction of putative sites is occupied in vivo. Intrinsically disordered regions (IDRs) have emerged as ...
www.biorxiv.org
May 27, 2025 at 10:11 PM
Reposted by Kazuhiro Maeshima
‼️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

🧬RNA processing
🧬Translation
🧬Transcription & chromatin regulation
🧬Method development
🧬Theory
May 27, 2025 at 1:45 PM
Reposted by Kazuhiro Maeshima
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
May 28, 2025 at 7:27 PM
Reposted by Kazuhiro Maeshima
A night flight over France and Italy in the International Space Station.
May 28, 2025 at 11:16 PM
Reposted by Kazuhiro Maeshima
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.
Our groundbreaking Dark Sectioning technique is now published in Nature Methods! 🎉 It supercharges existing imaging systems:
🔬 Widefield → Confocal
🔬 Single-photon → Multiphoton
🔬 2D-SIM → 3D-SIM
Now integrated in Airy PolarSIM and #FlexSIM!
doi.org/10.1038/s415...
#Microscopy #Fluorescence
May 29, 2025 at 1:57 AM