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Ellenberg Lab @ellenberglab.bsky.social · Jul 21

Our new non-denaturing nanoscale 3D DNA tracing technology provides single-cell (and sister-chromatid specific!) readout of chromatin structure with 10kb genomic resolution - Check it out!

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

Congratulations to Kai and Oyvind!!

Nanoscale 3D DNA tracing in non-denatured cells resolves the Cohesin-dependent loop architecture of the genome in situ - Nature Communications

A nanoscale 3D DNA tracing workflow visualizes Cohesin-dependent loops in single, structurally well-preserved cells. Computer simulations based on the tracing data give further insight into how Cohesi...

www.nature.com

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Siegel Lab @siegel-lab.bsky.social · Jul 18

We’re very excited about the potential of IACS for advancing infectious disease research and believe this review from the Goda lab and its collaborators in @natrevbioeng.nature.com highlights its many powerful applications. Check out the full paper here: www.nature.com/articles/s44...

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Anton Goloborodko @golobor.bsky.social · Jul 15

We found a new asymmetry in the large-scale chromosome structure: sister chromatids are systematically shifted by hundreds of kb in the 5′→3′ direction of their inherited strands! The work was led by Flavia Corsi, in close collaboration with the Daniel Gerlich lab.
www.biorxiv.org/content/10.1...
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Siegel Lab @siegel-lab.bsky.social · Jun 23

We’re excited to share our review: "Next-generation genetic screens in kinetoplastids", now published in NAR!
It covers a range of perturbation methods—from RNAi to prime editing—as well as emerging assay technologies like scRNA-seq and image-activated cell sorting.
academic.oup.com/nar/article/...

Next generation genetic screens in kinetoplastids

Abstract. The genomes of all organisms encode diverse functional elements, including thousands of genes and essential noncoding regions for gene regulation

academic.oup.com

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European Research Council (ERC) @erc.europa.eu · May 19

Are you based in the U.S. 🇺🇸 or Canada 🇨🇦 and thinking of doing research in Europe?

ERC grants offer up to €4.5 million to support groundbreaking, investigator-driven frontier research in all fields.

Watch the dedicated info session for researchers in your region👉 youtu.be/92QYink1Lik

#ChooseEurope

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Nature Reviews Genetics @natrevgenet.nature.com · May 21

New online! RNA splicing — a central layer of gene regulation

RNA splicing — a central layer of gene regulation

Nature Reviews Genetics, Published online: 21 May 2025; doi:10.1038/s41576-025-00846-xTechnological and computational advances in recent years, from cryo-electron microscopy to sequencing technologies and machine learning, have substantially deepened our understanding of RNA splicing. Nature Reviews Genetics and Nature Reviews Molecular Cell Biology present an online collection that showcases the novel biological insights facilitated by these advances.

www.nature.com

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Reposted by Siegel Lab

Nature @nature.com · May 7

Nature research paper: Chromatin loops are an ancestral hallmark of the animal regulatory genome

https://go.nature.com/4kcNObU

Chromatin loops are an ancestral hallmark of the animal regulatory genome - Nature

The physical organization of the genome in non-bilaterian animals and their closest unicellular relatives is characterized; comparative analysis shows chromatin looping is a conserved feature of genome architecture and spatial genome regulation emerged early in animal evolution.

go.nature.com

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Wonder of Science @wonderofscience.bsky.social · May 7

These boxes are not moving. A mind-bending optical illusion by Japanese artist Jagarikin.

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Robin Allshire 🇮🇪 🇪🇺✊🏿 ⬆️ Zak’s favourite nucleosome: K9me @allshire-lab.bsky.social · Apr 24

Our latest collaborative work with Keith Matthews’ lab using synthetic DNA binding proteins to explore the chromatin protein contexts of repetitive sequences in Trypanosoma brucei in now on bioRxiv - thanks to all involved! 2025.04.22.649942; doi: doi.org/10.1101/2025...

Defining the chromatin-associated protein landscapes on Trypanosoma brucei repetitive elements using synthetic TALE proteins

Kinetoplastids, such as Trypansoma brucei, are eukaryotes that likely separated from the main lineage at an exceptionally early point in evolution. Consequently, many aspects of kinetoplastid biology ...

doi.org

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Siegel Lab @siegel-lab.bsky.social · May 5

Very much looking forward to it.

Robin Allshire 🇮🇪 🇪🇺✊🏿 ⬆️ Zak’s favourite nucleosome: K9me @allshire-lab.bsky.social · Apr 30

Register for the excellent Epigenetics Gordon Research Conference Barcelona 10-15 Aug25. Theme: Epigenetic Variation: Mechanisms & Impact Across Systems. **FUNDING AVAILABLE to support attendance** ~15 talks to be chosen from submitted abstracts, so upload yours ASAP:
www.grc.org/epigenetics-...

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Reposted by Siegel Lab

Robin Allshire 🇮🇪 🇪🇺✊🏿 ⬆️ Zak’s favourite nucleosome: K9me @allshire-lab.bsky.social · Apr 30

Register for the excellent Epigenetics Gordon Research Conference Barcelona 10-15 Aug25. Theme: Epigenetic Variation: Mechanisms & Impact Across Systems. **FUNDING AVAILABLE to support attendance** ~15 talks to be chosen from submitted abstracts, so upload yours ASAP:
www.grc.org/epigenetics-...

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Siegel Lab @siegel-lab.bsky.social · Apr 23

Congratulations.

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Siegel Lab @siegel-lab.bsky.social · Apr 23

Great job!

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Mohamed-Ali HAKIMI @hakimi.bsky.social · Apr 11

In the silence of chromatin, Toxoplasma whispers change.
TgSNF2h sculpts the genome - MORC in the backseat.
Some genes wake. Others sleep.
A dance of nucleosomes shaping space for life parasite stages to unfold.

Now in Nature Microbiology:
rdcu.be/ehkWp

Nature Microbiology - Toxoplasma gondii evolved two ISWI remodellers, TgSNF2h and TgSNF2L. TgSNF2h forms a complex that insulates active genes, regulates MORC-driven sexual commitment and ensures...

rdcu.be

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ME Torres-Padilla @metorrespadilla.bsky.social · Apr 23

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...

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Siegel Lab @siegel-lab.bsky.social · Apr 2

Great work.

Nature Reviews Microbiology @natrevmicro.nature.com · Apr 2

#midweekmicro🔬

Parasite and vector circadian clocks mediate efficient malaria transmission🦟

@naturemicrobiol.bsky.social #microsky

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

Parasite and vector circadian clocks mediate efficient malaria transmission - Nature Microbiology

Mosquito salivary glands and malaria parasites exhibit daily rhythms, which impact blood feeding and sporozoite gene expression.

www.nature.com

Siegel Lab @siegel-lab.bsky.social · Mar 17

thanks a lot.

Siegel Lab @siegel-lab.bsky.social · Mar 12

This work was a great collaboration with the Colomé-Tatché and Mugnier labs.
@bmc-lmu.bsky.social
@www.helmholtz-munich.de
@johnshopkinssph.bsky.social
@uoe-eid.bsky.social

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Siegel Lab @siegel-lab.bsky.social · Mar 12

To evade the host immune response, many pathogens use antigenic variation, a strategy that involves periodic, semi-predictable switching of antigen expression.
Using a highly sensitive scRNA-seq approach, we have now discovered genomic features that control antigen selection mechanisms in T. brucei

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Siegel Lab @siegel-lab.bsky.social · Mar 12

If you are interested in antigenic variation, you may have wondered how parasites ‘select’ which antigen to express next.

Our manuscript, just published in Nature, provides some answers!

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

@lmumuenchen.bsky.social
@erc.europa.eu a.eu
@nature.com

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Doctors Without Borders / Médecins Sans Frontières (MSF) @msf.ca · Feb 18

#AidJobs: We are hiring, here is your chance to work with us.

International Secretary General: bit.ly/42VhaWN

Deputy Logistics Coordinator: bit.ly/4gIVDUf

Tembo Support Officer: bit.ly/4gJ9WIK

5 Nutritionists- bit.ly/3CVtzPW

Finance and Human Resources Manager: bit.ly/3QjZLzo

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Siegel Lab @siegel-lab.bsky.social · Feb 14

Hope we can join this meeting again this year.

LabEx ParaFrap @parafrap.bsky.social · Nov 21

Save The Date : The Next EMBO Workshop « Host-parasite relationship: from mechanisms to control strategies », organized by @ParaFrap, will be held October 5-8, 2025 @EMBOevents #Science #Parasite #France

Reposted by Siegel Lab

LabEx ParaFrap @parafrap.bsky.social · Dec 20

Save The Date : The Next EMBO Workshop « Host-parasite relationship: from mechanisms to control strategies », organized by @ParaFrap, will be held October 5-8, 2025 @EMBOevents #Science #Parasite #France

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Siegel Lab @siegel-lab.bsky.social · Feb 5

these are beautiful images!

Reposted by Siegel Lab

PLOS Biology @plosbiology.org · Feb 4

How is transport directionality achieved through the #trypanosome nuclear pore complex? The current model is symmetrical, but this study reveals that the trypanosome #NuclearPore has an asymmetrical architecture, with conserved hubs that direct mRNA transport 🧪 @plosbiology.org plos.io/3Q36QV2

Expansion microscopy identifies novel asymmetric pore proteins. The images show proExM of cell lines co-expressing epitope-tagged versions of NUP76 (top; magenta), NUP149 (middle; magenta), or NUP140 (bottom; magenta) in combination with NUP110 (green). Images were deconvolved (20 iterations for NUP149 and NUP76; 60 iterations for NUP140) and single planes of the nuclei are shown.

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