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Molecular Systems Biology @molsystbiol.org · 1d

10/2025 Issue ➡️ www.embopress.org/toc/17444292...
reduced genomes, adaptive mutations under stress, xenobiotics and gut microbiome, DMS analysis, TF effector metabolites
Cover: proteins can agglomerate with limited impact on cell by @elevylab.bsky.social

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Reposted by Molecular Systems Biology

Joe Grove @grovearmada.bsky.social · 12d

🚨 New Web Resource Alert! 🚨 We're delighted to share Viro3D a database of >85000 viral protein structure predictions from >4400 human & animal viruses.

🔗 viro3d.cvr.gla.ac.uk
📄 www.embopress.org/doi/full/10....

@molsystbiol.org @cvrinfo.bsky.social @uofgmvls.bsky.social #Virology #AlphaFold 🧪 🦠

Viro3D

viro3d.cvr.gla.ac.uk

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Reposted by Molecular Systems Biology

Jeremie Roux @jrxlab.bsky.social · 7d

Our latest paper just came out in Molecular Systems Biology !

Transition between cell states of sensitivity reveals molecular vulnerability of drug-tolerant cells @molsystbiol.org

www.embopress.org/doi/full/10....

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Reposted by Molecular Systems Biology

Lorenz Adlung Lab @adlunglab.com · 5d

🏎️ We wrote a N&Vs on the great new work from Shalev Itzkovitz lab in @molsystbiol.org. Barkai et al. calculate a turnover score and map it into spatial transcriptomics maps of intestinal tissues, informing us about dynamic biological processes in static atlases: www.embopress.org/do... 🧪

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Reposted by Molecular Systems Biology

Emmanuel Levy's lab @elevylab.bsky.social · 2d

@molsystbiol.org picked a neat cover for this month's issue 🙃 - Great work from Tal Levin, Hector Garcia-Seisdedos, many more colleagues (doi.org/10.1038/s443...) and great matching cover, too!

This month's cover highlights the article Mutation-induced filaments of folded proteins are inert and non-toxic in a cellular system by Emmanuel Levy, Hector Garcia-Seisdedos and colleagues. Yeast cells harboring mutation-induced filaments of folded proteins or “agglomerates”. The filaments appear large and disruptive, but surprisingly, Levin et al. reveal they are largely inert and non-toxic, unlike aggregates of misfolded proteins.

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Reposted by Molecular Systems Biology

Emmanuel Levy's lab @elevylab.bsky.social · 22d

Years ago we discovered that missense mutations in homomeric proteins often induces their supramolecular assembly, as in the 📽️👇 - Are such aberrant assemblies of *folded* proteins toxic? Surprisingly, NO. Cells are amazingly robust systems! Paper now online @molsystbiol.org doi.org/10.1038/s443...

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Reposted by Molecular Systems Biology

Biology-UNIGE @biology-unige.bsky.social · 21d

👏 Congratulations @elevylab.bsky.social for your latest publication in @molsystbiol.org: Mutation-induced filaments of folded proteins are inert and non-toxic in a cellular system @mocel.bsky.social #UNIGE

Emmanuel Levy's lab @elevylab.bsky.social · 22d

Years ago we discovered that missense mutations in homomeric proteins often induces their supramolecular assembly, as in the 📽️👇 - Are such aberrant assemblies of *folded* proteins toxic? Surprisingly, NO. Cells are amazingly robust systems! Paper now online @molsystbiol.org doi.org/10.1038/s443...

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Reposted by Molecular Systems Biology

Marco Trizzino @marcotrizzino.bsky.social · 16d

Our study on the role of LTR5HS and SVAs in regulation of human neural crest migration is now published as peer-reviewed paper on @molsystbiol.org!
Congrats to first author brilliant postdoc Laura Deelen, and all the authors involved! @imperialsci.bsky.social
www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Sep 8

9/2025 Issue ➡️ www.embopress.org/toc/17444292...
mutational bursts in subsets of yeast, directed evolution with optogenetics, mouse gut biosensor screening, gene program dysregulation analysis
Cover: AlphaDesign to generate various protein structures, e.g. protein site-specific binders and oligomers

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Reposted by Molecular Systems Biology

Biomedical Picture of the Day BPoD @bpodaily.bsky.social · Aug 29

Identifying genes essential to survival of bacteria Mycoplasma pneumoniae – the relevant new treatment targets

📷 ‪Maria Lluch-Senar, research Samuel Miravet-Verde & Raul Burgos et al Serrano lab @crg.eu in @molsystbiol.org

➡️ bpod.org.uk/archive/2025... with
@rooph.bsky.social

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Reposted by Molecular Systems Biology

CNRS Biologie @cnrsbiologie.bsky.social · Sep 1

#ResultatScientifique 🔎 | Saviez-vous que l’IA peut aider à prévoir comment un organisme réagit à son environnement ? Des scientifiques utilisent la levure comme modèle et réussissent à prédire plus de 200 traits grâce au machine learning
✍️ @litinice.bsky.social
📕 @molsystbiol.org | buff.ly/MliXXKz

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Molecular Systems Biology @molsystbiol.org · Aug 8

A. Mardinoglu et al. explore how AI + systems biology are transforming multi-omics integration for precision health and medicine ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Aug 8

AlphaDesign uses hallucination + sequence generation to create diverse proteins—from monomers to oligomers to site-specific binders ➡️ www.embopress.org/doi/full/10....

Molecular Systems Biology @molsystbiol.org · Aug 4

generative AI model PerturbNet predicts changes in gene expression and cell state in response to unseen chemical and genetic perturbations ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Aug 4

8/2025 Issue ➡️ www.embopress.org/toc/17444292... spatial metabolomics, protein compensation upon gene loss, ancient yeast gene family evolution, prion-like protein fibrils in the gut
Cover: PerturbNet deep generative model predicts states of cells perturbed by chemicals or genetics

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Reposted by Molecular Systems Biology

David Riglar @driglar.bsky.social · Jul 20

Excited to share the latest paper from the Riglar lab @imperialinfect.bsky.social & @crick.ac.uk.
We use #synbio for biosensor discovery in our quest to build 'smart probiotics' to sense and treat disease.
Well done @clare-r.bsky.social et al!
Thanks to @wellcometrust.bsky.social for funding!

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Molecular Systems Biology @molsystbiol.org · Jul 3

@skamrad.bsky.social @kiranrpatil.bsky.social show xenobiotics impact growth of gut bacteria and their metabolic homeostasis by affecting amine metabolism ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Jul 3

@mariananatalin6.bsky.social @marcofumasoni.bsky.social show evolutionary repair in response to DNA replication stress in yeast is predictable and consistent across different environments #CompensatoryEvolution #NutrientAvailability #ReplicationStress #GxE ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Jul 3

A bacterial synthetic memory system is used to enhance screening for new biosensors in the mouse gut by @driglar.bsky.social @clare-r.bsky.social ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Jul 3

integrated temporally resolved transcriptomic, proteomic, and secretomic profiling of human kidney mesenchymal cells from @savitski-lab.bsky.social @saezlab.bsky.social @miraburtscher.bsky.social identify dynamic changes upon TGF-beta stimulation ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Jul 3

Latent Graph-based individuAl Causal Effect Estimation (LaGrACE) is a new method from @benoslab.bsky.social lab to uncover gene program dysregulation and disease subtypes ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Jul 3

OptoRep continuous directed evolution method employs an optogenetic system to evolve proteins with new essential functions from the lab of @javalospu.bsky.social ➡️ www.embopress.org/doi/full/10....

Molecular Systems Biology @molsystbiol.org · Jul 3

reactant and product metabolite ratios revealed metabolic pathways differences between cancer subtypes and noncancer cell lines by @hoylipidlab.bsky.social @sydneyprecisionds.bsky.social @nancyts.bsky.social ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Jul 3

prion-like proteins in the worm gut can form amyloid fibrils and are linked to memory impairment and oxidative stress #Amyloid #Prion #Neurodegeneration #Microbiome #Gut #UABBarcelona ➡️ www.embopress.org/doi/full/10....

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Molecular Systems Biology @molsystbiol.org · Jul 3

Enzyme kinetic data mapped onto a yeast genome-scale metabolic model reveals interactions between enzymes and metabolites/metabolic reactions ➡️ www.embopress.org/doi/full/10....