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Romain Koszul

@rkoszul.bsky.social

#3Dgenome, #3R, #chromatin, #synbio, #microbiome... Opinions are my own.

723 Followers  |  202 Following  |  59 Posts  |  Joined: 06.12.2023  |  1.7474

Latest posts by rkoszul.bsky.social on Bluesky

Ah ouais quand même.

31.07.2025 21:16 — 👍 0    🔁 0    💬 0    📌 0
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A two year post-doctoral position at the BacterialGenome Plasticity Unit starting October 1st - Research

A 2-year postdoc position in my lab, under the supervision of P-Alex Kaminski, on Z-DNA phages and the benefit given by ZTGC DNA and the replication machinery, with attempt to create a Z based minireplicon
research.pasteur.fr/en/job/a-two...

28.07.2025 10:30 — 👍 42    🔁 48    💬 0    📌 0

Zipcar aussi est parti... c'était mon moyen de transport motorisé n°1 à Boston dans les années 2000, vraiment chouette.

26.07.2025 18:51 — 👍 1    🔁 0    💬 0    📌 0

C'est pourtant bien la tranquillité...

19.07.2025 08:59 — 👍 1    🔁 0    💬 1    📌 0

Apparently such white prompts have also appeared in (mostly AI generated) CVs - I cannot find the corresponding recent papers describing this - to bypass preliminary AI screens... and HR are at pain...
tbh this very fruitful red queen race was totally expected 😅

16.07.2025 11:36 — 👍 1    🔁 0    💬 0    📌 0
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A shotgun approach for highly multiplexed mammalian metabolic engineering Mammalian metabolic engineering is critical to advancing basic biology, bioproduction, and cell therapy. However, as pathway complexity increases, so does the size of both the combinatorial design spa...

Excited to share our work with @julietrolle.bsky.social & Jef Boeke.

We developed a 'shotgun' method to screen millions of synthetic metabolic pathways to enable mammalian cells to grow without two essential nutrients for the first time in >500 million years!

doi.org/10.1101/2025...

Thread...

14.07.2025 22:36 — 👍 22    🔁 10    💬 1    📌 0
WeTransfer TOS says they can use all your uploaded content for genAI

WeTransfer TOS says they can use all your uploaded content for genAI

Bye forever, WeTransfer.

14.07.2025 23:57 — 👍 6462    🔁 3452    💬 207    📌 985

@cnrsecologie.bsky.social regrette profondément l'adoption de cette loi à la vision court-termiste & ses conséquences graves sur l’environnement, qui méprise santé & bien-être de la population & le rôle des espèces sauvages dans la prod. agricole. La communauté scientifique n'a pas été entendue.

09.07.2025 08:38 — 👍 1639    🔁 1136    💬 36    📌 85
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'Positive review only': Researchers hide AI prompts in papers Instructions in preprints from 14 universities highlight controversy on AI in peer review

This is unethical, but tempted to include white text telling an AI reviewer to reveal itself in my next submission

asia.nikkei.com/Business/Tec...

08.07.2025 01:06 — 👍 29    🔁 6    💬 2    📌 2
Unique territorial and compartmental organization of chromosomes in the holocentric silkworm Hallmarks of multicellular eukaryotic genome organization are chromosome territories, compartments, and loop-extrusion-mediated structures, including TADs. However, these are mainly observed in model organisms, and most eukaryotes remain unexplored. Using Hi-C in the silkworm Bombyx mori we discover a novel chromatin folding structure, compartment S, which is “secluded” from the rest of the chromosome. This compartment exhibits loop extrusion features and a unique genetic and epigenetic landscape, and it localizes towards the periphery of chromosome territories. While euchromatin and heterochromatin display preferential compartmental contacts, S domains are remarkably devoid of contacts with other regions, including with other S domains. Polymer simulations show that this contact pattern can only be explained by high loop-extrusion activity within compartment S, combined with low extrusion elsewhere through the genome. This unique, targeted extrusion represents a novel phenomenon and underscores how evolutionarily conserved mechanisms—compartmentalization and loop extrusion—can be repurposed to create new 3D genome architectures. ### Competing Interest Statement The authors have declared no competing interest.

A little belated posting, but we (Emily Navarrete, Leonid Mirny, me) have an updated preprint in collaboration the Ines Drinnenberg, Héloïse Muller, José Gil Jr, + others on the strange and striking compartmentalization of silkworm chromatin: www.biorxiv.org/content/10.1...

08.07.2025 15:14 — 👍 22    🔁 11    💬 1    📌 0
The Most Beautiful Experiment: Meselson and Stahl
YouTube video by Science Communication Lab The Most Beautiful Experiment: Meselson and Stahl

Since the obituary of Frank Stahl just came out i repost this wonderful video of him and Matthew Meselson discussing "the most beautiful experiment"... amazing times...

m.youtube.com/watch?v=7-tn...

08.07.2025 07:30 — 👍 5    🔁 2    💬 0    📌 0

Ah! j'avais pas fait le lien...

05.07.2025 18:29 — 👍 0    🔁 0    💬 1    📌 0

C'était vrai mais il semble que depuis 2024 ca c'est beaucoup, beaucoup ouvert (et tant mieux !)

05.07.2025 17:47 — 👍 0    🔁 0    💬 0    📌 0
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June was a productive month: brought two things into this world, both of which were great collaborative efforts and about nine months in the making. Check out where we map P. falciparum genome architecture at high resolution with Micro-C here:

www.nature.com/articles/s41...

30.06.2025 15:22 — 👍 48    🔁 7    💬 9    📌 1

How does the malaria parasite regulate co-expression of genes? By recruiting them into transcription factories, courtesy of MORC et al. A fantastic team effort led by @jessmbryant.bsky.social with Jacques Serizay @singh-parul.bsky.social, @ju-couble.bsky.social @rkoszul.bsky.social

30.06.2025 11:36 — 👍 41    🔁 11    💬 1    📌 0

Ben... plutôt l'inverse pour la dernière réponse, non ?
77% pensent que c'est crucial, nécessaire ou utile !

28.06.2025 15:11 — 👍 0    🔁 0    💬 1    📌 0
The Most Beautiful Experiment: Meselson and Stahl
YouTube video by Science Communication Lab The Most Beautiful Experiment: Meselson and Stahl

Just learned that Frank Stahl (of the Meselson and Stahl DNA replication experiment ("the most beautiful experiment in biology") died at the beginning of April, to no fanfare. Here's a lovely video of them reminiscing: www.youtube.com/watch?v=7-tn...

26.06.2025 10:01 — 👍 138    🔁 72    💬 5    📌 7
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Here's a new very exciting paper from our #CDlab: www.cell.com/cell-reports...

In an exemplary in vitro/in vivo study, 1st authors ‪@btanalikwu.bsky.social‬ & Alice Deshayes showed that dense linear protein arrays (e.g. telomeres) do stop loop-extruding SMCs!

Great collaboration with Marcand lab.

25.06.2025 06:59 — 👍 34    🔁 11    💬 0    📌 0
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Postdoctoral positions in epidemic mathematical/statistical modelling - Research Job description We are recruiting postdocs to contribute to research projects in the Mathematical Modelling of Infectious Diseases Unit, at Institut Pasteur in Paris. The candidates will be expected t...

New postdoc positions with a number of exciting epidemic modelling projects opening in our Unit at @pasteur.fr in beautiful Paris. Deadline for applications: 26th June.
research.pasteur.fr/en/job/postd...

05.06.2025 05:22 — 👍 54    🔁 65    💬 0    📌 3
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Donald Trump complains he won't get Nobel Peace Prize Posting on Truth Social on Friday night, Trump cited a peace deal he said his administration helped broker between the Democratic Republic of Congo and Rwanda.

I just realized that yesterday's whining about not getting the Nobel Prize was probably a rare instance of causal reasoning.

www.newsweek.com/doald-trump-...

22.06.2025 16:45 — 👍 2    🔁 0    💬 0    📌 0

Hard to reach such a stupidity level, and this is a competitive field. Are these guys always high ?

21.06.2025 15:27 — 👍 0    🔁 0    💬 0    📌 0

Le top rétrospectivement c'est la contrebasse. C'est grave et encombrant, tu peux pas la prendre en vacance, les profs le savent et tout le monde est cool. En plus il en faut toujours une et on entend qu'elle.

20.06.2025 18:35 — 👍 1    🔁 0    💬 0    📌 0
text screenshot: Mike Huckabee >
Mr President, God spared you in Butler, PA to be the most consequential President in a century-maybe ever.
The decisions on your shoulders I would not want to be made by anyone else. You have many voices speaking to you Sir, but there is only ONE voice that matters. HIS voice. | am your appointed servant in this land and am available for you but I do not try to get in your presence often because I trust your instincts. No President in my lifetime has been in a position like yours. Not since Truman in 1945. I don't reach out to persuade you. Only to encourage you. I believe you will hear from heaven and that voice is far more important than mine or ANYONE else's. You sent me to Israel to be your eyes, ears and voice and to make sure our flag flies above our embassy. My job is to be the last one to leave.
I will not abandon this post. Our flag will NOT come down! You did not seek this moment.
This moment sought
YOU! It is my honor to serve you!
Mike Huckabee

text screenshot: Mike Huckabee > Mr President, God spared you in Butler, PA to be the most consequential President in a century-maybe ever. The decisions on your shoulders I would not want to be made by anyone else. You have many voices speaking to you Sir, but there is only ONE voice that matters. HIS voice. | am your appointed servant in this land and am available for you but I do not try to get in your presence often because I trust your instincts. No President in my lifetime has been in a position like yours. Not since Truman in 1945. I don't reach out to persuade you. Only to encourage you. I believe you will hear from heaven and that voice is far more important than mine or ANYONE else's. You sent me to Israel to be your eyes, ears and voice and to make sure our flag flies above our embassy. My job is to be the last one to leave. I will not abandon this post. Our flag will NOT come down! You did not seek this moment. This moment sought YOU! It is my honor to serve you! Mike Huckabee

Trump just shared this alarming text from Israeli Ambassador Mike Huckabee, effusively praising him while telling him that no president has been in his position "since Truman in 1945" (when the U.S. dropped the atomic bomb on Japan) & that he "will hear a voice from heaven" telling him what to do.

17.06.2025 14:34 — 👍 2750    🔁 1017    💬 646    📌 777
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Cette campagne a besoin de vous Sauvons le Palais de la découverte

Une des plus grandes institutions culturelles scientifiques de ce pays est en danger.

👉Une pétition pour le Palais de la découverte
chng.it/XsXjczbN55

13.06.2025 12:47 — 👍 194    🔁 158    💬 6    📌 11
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Il a fait 38 °C aujourd’hui, en ce 11 juin. Ce n’est plus un simple fait divers : ces températures sont incompatibles avec la nidification des oiseaux.

Lors des vagues de chaleur précoces (2019, 2022), des mortalités massives ont été observées chez les espèces cavernicoles ou sous les toitures. 1/5

11.06.2025 16:12 — 👍 681    🔁 437    💬 12    📌 21
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Conservation of regulatory elements with highly diverged sequences across large evolutionary distances Nature Genetics - Combining functional genomic data from mouse and chicken with a synteny-based strategy identifies positionally conserved cis-regulatory elements in the absence of direct sequence...

How to find Evolutionary Conserved Enhancers in 2025? 🐣-🐭
Check out our paper - fresh off the press!!!
We find widespread functional conservation of enhancers in absence of sequence homology
Including: a bioinformatic tool to map sequence-diverged enhancers!
rdcu.be/enVDN
github.com/tobiaszehnde...

27.05.2025 12:19 — 👍 241    🔁 109    💬 7    📌 9
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The human proteome with direct physical access to DNA Zero-distance photo-crosslinking reveals direct protein-DNA interactions in living cells, enabling quantitative analysis of the DNA-interacting proteome on a timescale of minutes with single-amino-aci...

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...
🧵

23.05.2025 07:06 — 👍 62    🔁 24    💬 3    📌 1

#CoNRS #CNRS #ESR

La liste des candidat.e.s par section est maintenant disponible

Vote du 19 au 26 juin 2025

www.dgdr.cnrs.fr/elections/sc...

19.05.2025 09:17 — 👍 17    🔁 15    💬 1    📌 1
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I will be recruiting new postdocs with start dates end 2025 - early 2026. If you'd like to work at the Pasteur Institute in the heart of Paris surrounded by amazing scientists, reach out to discuss possible projects on SynBio / Bacterial Immunity!

18.05.2025 15:19 — 👍 85    🔁 79    💬 3    📌 2

Did editors accepted your justification ? (bad experience here).

29.04.2025 11:23 — 👍 1    🔁 0    💬 1    📌 0

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