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Enrico Carlon @ecarlon.bsky.social · 2h

Traveling back after an exciting three days meeting of the MeChaNiSM Doctoral Network @mechanism-network.bsky.social - Thanks to all students, PIs and supporting staff for these intense days of scientific discussions about our projects on DNA/RNA mechanics. www.chalmers.se/en/projects/...

MeChaNiSM

Mechanical Characterization of Nucleic acids using Single Molecule techniques

www.chalmers.se

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Enrico Carlon @ecarlon.bsky.social · 26d

New preprint out! We investigate DNA kinks using biased all-atom MD simulations, in collaboration with Arianna Fassino and Aderik Voorspoels @aderikvoorspoels.bsky.social, as part of the EU-funded Doctoral Network MeChaNiSM @mechanism-network.bsky.social

www.biorxiv.org/content/10.1...

Inferring DNA kinkability from biased MD simulations

In several biological processes, such as looping, supercoiling and DNA-protein interactions, DNA is subject to very strong deformations. While coarse-grained models often approximate DNA as a smoothly...

www.biorxiv.org

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Reposted by Enrico Carlon

Condensed Matter Physics Center (IFIMAC) @ifimacuam.bsky.social · Sep 4

📢Seminar 11 September at 12h, Faculty of Science, Seminar Room Module 5
@cienciasuam.bsky.social @uam.es
Enrico Carlon @ecarlon.bsky.social from KU Leuven
will talk about DNA mechanics beyond the twistable wormlike chain. See you there!
ifimac.uam.es/ifimac-semin...

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Reposted by Enrico Carlon

Cees Dekker @ceesdekker.bsky.social · Aug 22

Applicants wanted 5:
Open position for PhD Student Studying Vitro Single-molecule Transport Across Peroxisome Mimics
careers.tudelft.nl/job/Delft-Ph...

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Enrico Carlon @ecarlon.bsky.social · Aug 22

Interesting paper by Tony Lemos and Harold Kim. DNA minicircles adopt a specific inside-out orientation. Previously predicted, now this effect has been observed in atomic force microscopy (AFM) experiments!

arxiv.org/abs/2508.15091

Visualizing Poloidal Orientation in DNA Minicircles

A short (<150 bp) double-stranded DNA (dsDNA) molecule ligated end-to-end forms a DNA minicircle. Due to sequence-dependent, nonuniform bending energetics, such a minicircle is predicted to adopt a ce...

arxiv.org

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Enrico Carlon @ecarlon.bsky.social · Jul 21

Enjoying this workshop on the Statistical Mechanics of polymers in Venice these days...
Great program and organization!

userswww.pd.infn.it/~orlandin/Ve...

Palazzo Franchetti. Istituto Veneto di Scienze, Lettere ed Arti

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Enrico Carlon @ecarlon.bsky.social · Jul 9

New preprint! Collaboration with Andrea Bonato, Sergey Kitaev, Davide Marenduzzo and Enzo Orlandini
arxiv.org/abs/2507.00520

Topological weight and structural diversity of polydisperse chromatin loop networks

Current biophysical models for transcriptionally active chromatin view this as a polymer with sticky sites, mimicking transcription units such as promoters and enhancers which interact via the binding...

arxiv.org

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Enrico Carlon @ecarlon.bsky.social · Apr 22

Collaboration with Midas Segers @pol-kuleuven.bsky.social, Enrico Skoruppa and Helmut Schiessel @poldresden.bsky.social (4/4)

Enrico Carlon @ecarlon.bsky.social · Apr 22

In these experiments a single DNA molecule is attached to a solid surface and to a bead which is pulled and rotated by magnetic fields. Our paper develops a theory of multiplectonemes formation in stretched and twisted DNA, which is in excellent agreement with simulations. (3/4)

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Enrico Carlon @ecarlon.bsky.social · Apr 22

Plectonemes are supercoiled structures that form when DNA is overwound (or underwound). They help DNA fit in tight space and play an important role in gene regulation. The figure illustrates plectonemes forming in DNA under torque and tension as in magnetic tweezers in vitro experiments. (2/4)

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Enrico Carlon @ecarlon.bsky.social · Apr 22

Very happy that our latest publication "Statistical mechanics of multiplectoneme phases in DNA" doi.org/10.1103/Phys... was selected as Editors' Suggestion. These suggestions list "a small number of papers that the editors and referees find of particular interest, importance, or clarity". (1/4)

doi.org

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Enrico Carlon @ecarlon.bsky.social · Apr 3

A 3 year ERC-funded post-doc position in the Broedersz group of @vuamsterdam.bsky.social. Topic: Statistical physics of Chromosomes
workingat.vu.nl/vacancies/po...

Vacancy — Post Doc: Statistical physics of chromosomes

The Broedersz group (Theoretical physics of life) has an ERC funded opening for a 3-year Post Doc position on the statistical and dynamic organization of chromosomes.

workingat.vu.nl

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Reposted by Enrico Carlon

Physics of Life Leuven @pol-kuleuven.bsky.social · Apr 3

Exciting news! PoL@KUL invites you to the inaugural lecture of the International Francqui Professor 2024-25, Prof. Davide Marenduzzo (U. of Edinburgh) on Tuesday, April 29, 2025 in Leuven:

Biophysical principles of chromosome organisation

Info and registration:

fys.kuleuven.be/english/coll...

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Enrico Carlon @ecarlon.bsky.social · Mar 31

Welcome to Arianna Fassino who has recently joined our group to start a PhD project on simulations of Nucleic Acids Mechanics. The project is part of a EU-Marie Skłodowska Curie Doctoral Network “MeChaNiSM” Mechanical Characterization of Nucleic acids - www.chalmers.se/en/projects/...

MeChaNiSM

Mechanical Characterization of Nucleic acids using Single Molecule techniques

www.chalmers.se

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Reposted by Enrico Carlon

Biozentrum, University of Basel @biozentrum.unibas.ch · Mar 20

Apply now for our international Master of Science in Physics of Life @biozentrum.unibas.ch @unibasel.ch! Scholarships available.

More information: www.biozentrum.unibas.ch/education/de...

#Master #Students #Research #Physics #Mathematics #ComputerScience #Engineering #Basel #Switzerland

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Reposted by Enrico Carlon

Honsworth @drhonsworth.bsky.social · Mar 18

Very pleased to share our new story on SMC complexes, a great team effort from @roisnehamelinf.bsky.social, @taschner.bsky.social in the GruberLab and James of @dnatopologylab.bsky.social We find that SMC hinge domains are ssDNA gates to facilitate obstacle bypass during DNA loop extrusion!

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Reposted by Enrico Carlon

Stephan Gruber @gruberlab.bsky.social · Mar 18

Now, 20+ years later, our lab revisits the hinge using the anti-plasmid SMC complex Wadjet. We show that the SMC hinge is a DNA gate—an obstacle bypass gate selective for ssDNA, used to navigate chromosomal barriers during DNA loop extrusion.

schematic model for obstacle navigation by SMC rings by extrusion through the SMC lumen and by hinge bypassing

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Reposted by Enrico Carlon

Stephan Gruber @gruberlab.bsky.social · Mar 18

Yet another preprint from the lab—this one is personal. During my PhD, I ended up working on the cohesin SMC hinge, showing its role in sister chromatid cohesion and proposing it as a DNA entry gate in the SMC ring. But the details have remained mysterious and controversial.

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Reposted by Enrico Carlon

Stephan Gruber @gruberlab.bsky.social · Mar 18

Hinge bypass can explain some otherwise-difficult to explain observations made by colleagues using single molecule imaging and by simulating chromosome folding. DNA loop-extruding SMC complexes turn out to be even a bit more wonderful.

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Reposted by Enrico Carlon

Stephan Gruber @gruberlab.bsky.social · Mar 18

Awesome teamwork and important initial insights from @drhonsworth.bsky.social @roisnehamelinf.bsky.social @taschner.bsky.social with great additions from Madhu @dnatopologylab.bsky.social and James. See for yourself at: www.biorxiv.org/content/10.1...

The SMC Hinge is a Selective Gate for Obstacle Bypass

DNA loop-extruding SMC complexes play vital roles in genome maintenance and DNA immunity. However, the ability of these ring-shaped DNA motors to navigate large DNA-bound obstacles, such as DNA/RNA po...

www.biorxiv.org

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Reposted by Enrico Carlon

Kazuhiro Maeshima @kazu-maeshima.bsky.social · Feb 20

Our new review on how the #chromatin domain is formed in the cell is now available @Curr Opin Struct Biol.📄✨
We critically discuss the domain formation mechanism from a physical perspective, including #phase-separation and #condensation.
📥 Free-download link:
authors.elsevier.com/a/1keGn,LqAr...

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Enrico Carlon @ecarlon.bsky.social · Feb 5

Just published in J Chem Phys @aip.bsky.social special issue on "Chromatin Structure and Dynamics". I will tell more on this work in a future post. Collaboration with @lremini.bsky.social, M. Segers and A. Parmeggiani.
doi.org/10.1063/5.02...

Inferring interphase chromosomal structure from multiplexed fluorescence in situ hybridization data: A unified picture from human and mouse cells

We analyze multiplexed fluorescence in situ hybridization (m-FISH) data for human and mouse cell lines. The m-FISH technique uses fluorescently-labeled single-s

doi.org

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Enrico Carlon @ecarlon.bsky.social · Jan 22

Thanks for the nice lecture!

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Reposted by Enrico Carlon

Rosana Collepardo @rcollepardo.bsky.social · Dec 24

Is chromatin ordered or disordered? It all depends on the linker DNA length.

Check our latest work with Mike Rosen and Sy Redding. We explore how changes in linker DNA length (as small as 1 bp) fine-tune chromatin structure, between order and disorder, and the properties of chromatin droplets

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Enrico Carlon @ecarlon.bsky.social · Dec 20

Congratulations to Dr. Aderik Voorspoels on earning your PhD at KU Leuven! It was a honor to co-supervise your PhD journey. I am proud of all that you have accomplished and excited to see what the future holds for you. Wishing you every success for your post-doc at the University of Liverpool!

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