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Reposted by The Lewis Lab

Camille Moore @camille-moore.bsky.social · 6d

Today I am so pleased to present our work on how chromatin remodelers affect mesoscale chromatin organization.
www.science.org/doi/10.1126/...

ATP-dependent remodeling of chromatin condensates reveals distinct mesoscale outcomes

Adenosine triphosphate (ATP)–dependent chromatin remodeling enzymes mobilize nucleosomes, but how such mobilization affects chromatin condensation is unclear. We investigate effects of two major remod...

www.science.org

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Reposted by The Lewis Lab

Vaclav Veverka @vaclav-veverka.bsky.social · 17d

How do flexible regions of histone chaperones team up to handle histones? Together with Fred Winston’s lab
@harvardmed.bsky.social, we reveal new insights in our study just out in Mol Cell. Hats off to James Warner and Vanda Lux @iocbprague.bsky.social for their key contributions! dlvr.it/TNB145

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Reposted by The Lewis Lab

Timothy En Haw Chan @timothykoala.bsky.social · 17d

Requirements for establishment and epigenetic stability of mammalian heterochromatin.
www.cell.com/molecular-ce...

Requirements for establishment and epigenetic stability of mammalian heterochromatin

Tatarakis et al. study how H3K9me3 heterochromatin is formed and inherited in mammalian cells. Using a synthetic heterochromatin assembly system and genetic screens, they uncover requirements for init...

www.cell.com

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Reposted by The Lewis Lab

Vijay Ramani @vram142.bsky.social · 18d

Some (+)ve news to lighten another heavy weekend: our latest preprint (c/o Mattiroli + Ramani labs) is up!
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)

The eukaryotic replisome intrinsically generates asymmetric daughter chromatin fibers

DNA replication is molecularly asymmetric, due to distinct mechanisms for lagging and leading strand DNA synthesis. Whether chromatin assembly on newly replicated strands is also asymmetric remains un...

www.biorxiv.org

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Reposted by The Lewis Lab

Hopfner Lab @hopfnerlab.bsky.social · 20d

Thrilled that our work is now finally out in Nature Comms!
rdcu.be/eG3vP

We reveal cryo-EM structures of the MRN complex bound to DNA & TRF2 - showing how DNA breaks are sensed and regulated at telomeres.
Fantastic work by first authors @yilanfan.bsky.social @filizkuybu.bsky.social & Hengjun!

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Reposted by The Lewis Lab

Anders Sejr Hansen @andersshansen.bsky.social · 21d

Very interesting new @wbickmor.bsky.social commentary on the mechanistic mystery that is very distal enhancer-promoter interactions www.nature.com/articles/s41...

Is enhancer-driven gene regulation all wrapped up? - Nature Reviews Genetics

In this Comment, Wendy Bickmore discusses mechanistic models of how 3D genome organization facilitates communication between distant enhancers and their target promoters to regulate gene expression.

www.nature.com

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Reposted by The Lewis Lab

Maxim Greenberg @maxvcg.bsky.social · 23d

Very excited to share an excellent review from @teresa-urli.bsky.social, published one week before her PhD defense! We did a deep dive into the fascinating biology of the variant Polycomb complex, PRC1.6 (1/5) journals.plos.org/plosgenetics...

Epigenetic relay: Polycomb-directed DNA methylation in mammalian development

In mammals, repression of germline-specific gene expression is essential for preserving somatic cell identity and preventing disease. Germline gene silencing is often dependent on the presence of prom...

journals.plos.org

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Reposted by The Lewis Lab

Ollie Rando @epididymosome.bsky.social · 27d

E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism | Science www.science.org/doi/10.1126/...

E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism

Transcription factors (TFs) may activate or repress gene expression through an interplay of different mechanisms, including RNA polymerase (RNAP) recruitment, exclusion, and initiation. However, depen...

www.science.org

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Reposted by The Lewis Lab

Trends in Genetics @cp-trendsgenetics.bsky.social · 27d

"Unmasked: transposable elements as drivers and targets in cancer"
by Ting Wang & colleagues

"This review synthesizes a growing body of work that positions TEs as both catalysts and antagonists of the tumor state."

Check it out!
authors.elsevier.com/sd/article/S...

Figure I. Origins of transposable element (TE)-encoded and TE-derived proteins in cancer.

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Reposted by The Lewis Lab

siddhartha jena @epijenatics.bsky.social · 27d

Excited to share my postdoc work, out on bioRxiv today! Histones package DNA into nucleosomes to form the building blocks of chromatin, but how modular and programmable is this system? 1/9

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Reposted by The Lewis Lab

Kranzusch Lab @kranzuschlab.bsky.social · Sep 5

How can we understand the earliest events in evolution of eukaryotic immunity? @yao-li.bsky.social reports incredible molecular fossils of complete bacterial-like operons in eukaryotes that illuminate how animal immunity was first acquired from anti-phage defense

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

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Reposted by The Lewis Lab

Johan Jakobsson @jakobssonlab.bsky.social · Sep 7

New preprint from my lab! We describe how transposable elements are activated in Parkinson’s disease, which is linked to an interferon response. We believe this study significantly advances our understanding of transposons and their role in human brains.

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

Activation of transposable elements is linked to a region- and cell-type-specific interferon response in Parkinson's disease

Parkinson's disease (PD) is a common age-related neurodegenerative disorder involving a neuroinflammatory response, the cause of which remains unclear. Transposable elements (TE) have been linked to i...

www.biorxiv.org

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Reposted by The Lewis Lab

dfachinetti.bsky.social @dfachinetti.bsky.social · Sep 4

#1 Centromeres are epigenetic loci defined by CENP-A, positioned in unmethylated DNA flanked by highly methylated regions. Our work, published in @natgenet.nature.com in collaboration with @naltemose.bsky.social investigates the role of DNAme at human centromeres www.nature.com/articles/s41...

DNA methylation influences human centromere positioning and function - Nature Genetics

Genome-wide and targeted perturbation of DNA methylation at centromeres affects CENP-A positioning and centromere structure, resulting in aneuploidy and reduced cell viability.

www.nature.com

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Reposted by The Lewis Lab

Eric Conway @conwayer1.bsky.social · Aug 27

Delighted that our work on EZH2 dominant negativity in Weaver syndrome is now out in Genes & Development!

This exciting work on chromatinopathies 🧬 was in collab with @adrianbracken.bsky.social and spearheaded by Orla Deevy.

@ucddublin.bsky.social @ucd-sbbs.bsky.social

www.ucd.ie/newsandopini...

UCD co-lead breakthrough discovering genetic mechanism driving Weaver syndrome

www.ucd.ie

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Reposted by The Lewis Lab

Bluma Lesch @ambystoma22.bsky.social · Aug 20

New paper on the role of H3K4me3 at enhancers! We (led by Haoming Yu) used dCas9 epigenome editing to add H3K4me3 to intergenic enhancers. This was (1) sufficient to turn up transcription at open, active regions and (2) has no effect on target gene transcription. genesdev.cshlp.org/content/earl...

H3K4me3 amplifies transcription at intergenic active regulatory elements

A biweekly scientific journal publishing high-quality research in molecular biology and genetics, cancer biology, biochemistry, and related fields

genesdev.cshlp.org

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Reposted by The Lewis Lab

AmélieFT@AFTLab @amelieft.bsky.social · Aug 13

I am very excited to share the newest paper of the lab, a huge amount of work led by our talented PhD student Maxime Galloy, in close collaboration with Andréanne Blondeau, our dedicated research assistant for 10 years! 🙌

www.cell.com/molecular-ce...

Ubiquitination of the histone variant mH2A1.2 prevents toxic RAD18 accumulation at a subset of genomic loci upon replication stress

Using biochemical assays and a mutant disrupting RNF168-dependent ubiquitination of the histone variant macroH2A1.2, Galloy et al. identified an unexpected role for histone mH2A1.2 ubiquitination in p...

www.cell.com

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Reposted by The Lewis Lab

Abdel Mazouzi @amazouzi.bsky.social · Aug 13

I am thrilled to share with you my first co-corresponding author Nature paper with Jos Jonkers. This project was led by the extraordinary @sarahmoser.bsky.social . Congratulations, and thank you to all the authors, @nkinl.bsky.social , and @oncodeinstitute.bsky.social for their support.

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Reposted by The Lewis Lab

Katherine Aird @airdlab.bsky.social · Aug 14

The summer has been busy! Along with the move and a PhD defense, we have updated two preprints:
www.biorxiv.org/content/10.1...

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

The chemotherapy-induced senescence-associated secretome promotes cell detachment and metastatic dissemination through metabolic reprogramming

Cellular senescence, characterized by a stable cell cycle arrest, is a well-documented consequence of several widely used chemotherapeutics that has context-dependent roles in cancer. Although senesce...

www.biorxiv.org

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Reposted by The Lewis Lab

Ting Wu Lab @tingwu-lab.bsky.social · Aug 13

What better way to launch our new account with the publication of @jmstein.bsky.social latest paper from the lab! 🧪 Check out the 🧵 below to learn more about tkPAINT and how we use it to image proteins, DNA, and RNA in the nucleus using DNA-PAINT.

Johannes Stein @jmstein.bsky.social · Aug 13

(1/n) DNA-PAINT imaging inside the nucleus at single antibody resolution using TIRF? Ultrathin sectioning makes it happen!

Grateful to share my postdoctoral work introducing “tomographic & kinetically-enhanced DNA-PAINT” or in brief: tkPAINT. Out in @pnas.org!
doi.org/10.1073/pnas...
👇🧵

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Reposted by The Lewis Lab

Epigenome Technologies @epigenometech.bsky.social · Aug 4

Epigenetics Update - The molecular basis of lamin-specific chromatin interactions go.nature.com/3GRXydB

Chiara Lanzuolo (INGM) and Ohad Medalia (University of Zurich) reporting in NSMB

#Epigenetics #Chromatin #Lamin
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Gain deeper insights into gene regulation; epigenometech.com

The molecular basis of lamin-specific chromatin interactions - Nature Structural & Molecular Biology

Wang, Kronenberg-Tenga, Rosti and colleagues use several structural approaches to analyze the distribution of nucleosomes at the lamin–chromatin interface, test the impact of lamins on nucleosome dens...

go.nature.com

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Reposted by The Lewis Lab

Schubeler Lab @schubelerlab.bsky.social · Aug 12

Excited to share our latest preprint. www.biorxiv.org/content/10.1.... Lead by Lukas, we investigated multiple ways of assessing a TF's sensitivity to chromatin based on genome-wide binding profiles. The developed methods allowed us to quantify chromatin sensitivity across tested TFs.

A novel deep learning-based framework reveals a continuum of chromatin sensitivities across transcription factors

The genome-wide binding of many transcription factors (TFs) depends not only on the presence of their recognition motifs, but also on the surrounding chromatin context. This raises the question of how...

www.biorxiv.org

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The Lewis Lab @peterlewislab.bsky.social · Aug 13

By contrast, removing the SUZ12 NBD yields an RNA-poor PRC2 that spreads H3K27me3 broadly in the genome, creating a massive low-level methylation background that decoys PRC1 away from its canonical targets- a global shift in mark abundance that doesn’t happen in the BRG1 setting.

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The Lewis Lab @peterlewislab.bsky.social · Aug 13

great question- in the Crabtree lab work BRG1 loss causes rapid PRC1/2 redistribution from high-occupancy domains to BAF-opposed sites without major change in bulk H3K27me3.

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Reposted by The Lewis Lab

Akanksha Thawani, PhD @akankshathawani.bsky.social · Jun 23

Vertebrate retrotransposons are the future of gene therapy. But how do they insert their genes? 🔥🔥

Thrilled to share our new work now published with Kathy Collins, @nogaleslab.bsky.social @berkeleymcb.bsky.social where we investigate this with #cryoEM & biochemistry in 🧪 and cells! #RNAsky #TEsky

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The Lewis Lab @peterlewislab.bsky.social · Aug 13

VEFS: the NBD is gone. RNA binding is rare (small red bubble). Most PRC2 is RNA-free, catalytically active, and binds both CpG and non-CpG sites.  Result: diffuse H3K27me3 that dilutes PRC1 away from its normal targets, disrupting gene silencing.
Read more in our preprint: tinyurl.com/4yrwftrn

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