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Tara Bartolec

@tarabartolec.bsky.social
201 followers 201 following 13 posts

EIPOD-LinC postdoc fellow in the Savitski and Typas labs at EMBL, Heidelberg. Proteomics, phages, PTMs, XLMS 🇦🇺🦠🧑‍🔬

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Reposted by Tara Bartolec
Australian Research Council @arc-gov-au.bsky.social · 19/08/2026
This #NationalScienceWeek, discover ARC-funded research exploring how microbes found in the wax moth caterpillar could help break down plastic waste. Professor Amy Cain's work is advancing new biological approaches to recycling and environmental sustainability: www.arc.gov.au/news-and-pub...
Professor Amy Cain works with laboratory equipment, seated beside a benchtop bioreactor system connected by numerous tubes and sensors. Wearing a white laboratory coat, Professor Cain adjusts part of the apparatus while surrounded by glass vessels and scientific instrumentation in a modern research laboratory.
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Typas Lab @typaslab.bsky.social · 20/08/2026
Excited to share our paper with @savitski-lab.bsky.social, led by @tarabartolec.bsky.social, Karin Mitosch & Clément Potel, out now in @nature.com. We show that T7 phage broadly disables bacterial defenses using a unique ‘loose cannon’ protein kinase. www.nature.com/articles/s41...
nature.com
Pervasive phosphorylation by phage T7 kinase disarms bacterial defences - Nature
The T7 bacteriophage deactivates bacterial defence systems through T7K phosphorylation of nearly all host and phage proteins during infection.
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Savitski Lab @savitski-lab.bsky.social · 20/08/2026
1/5 How much phosphorylation can a single kinase deposit? In our new study with @typaslab.bsky.social out in @nature.com, phage T7's kinase (T7K) modifies almost all the E. coli proteome + more densely than all ~500 kinases do our own proteomes 🤯 www.nature.com/articles/s41...
nature.com
Pervasive phosphorylation by phage T7 kinase disarms bacterial defences - Nature
The T7 bacteriophage deactivates bacterial defence systems through T7K phosphorylation of nearly all host and phage proteins during infection.
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Tara Bartolec @tarabartolec.bsky.social · 20/08/2026
So happy to share that this work is finally out, now in @nature.com! Lots of new goodies since preprint so plz check it out (old thread below). Giant thank you to everybody involved + all @savitski-lab.bsky.social and @typaslab.bsky.social lab members 🙏🙏🙏 @embl.org nature.com/articles/s41...
nature.com
Pervasive phosphorylation by phage T7 kinase disarms bacterial defences - Nature
The T7 bacteriophage deactivates bacterial defence systems through T7K phosphorylation of nearly all host and phage proteins during infection.
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Reposted by Tara Bartolec
EMBL-EBI @ebi.embl.org · 16/03/2026
You asked, we listened. Millions of AI-predicted protein complex structures are now available in the #AlphaFold Database. This spans homodimers from 20 of the most studied species, including humans, as well as the World Health Organization’s priority pathogens list. www.ebi.ac.uk/about/news/t...
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Savitski Lab @savitski-lab.bsky.social · 24/02/2026
10 years and still standing strong @EMBL 🍾💪 Huge thanks to all members, alumni, supporters & colleagues who made it possible. Here’s to the next decade! 🙏
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miraburtscher.bsky.social @miraburtscher.bsky.social · 11/02/2026
When I first learned about omics at university, I confidently stopped caring about single proteins. Fast-forward 4 years of a system’s biology PhD, I now have the most amazing favorite single protein which I can’t stop thinking about. Here is the story of how that happened 👀
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George Bouras @gbouras13.bsky.social · 14/01/2026
Phold's manuscript is now available @narjournal.bsky.social thanks to @susiegriggo.bsky.social @npbhavya.bsky.social @vijinim.bsky.social @linsalrob.bsky.social @martinsteinegger.bsky.social @milot.bsky.social @eunbelivable.bsky.social & others not on bsky #phagesky academic.oup.com/nar/article/...
academic.oup.com
Protein structure-informed bacteriophage genome annotation with Phold
Abstract. Bacteriophage (phage) genome annotation is essential for understanding their functional potential and suitability for use as therapeutic agents.
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Vivek Mutalik @vivekmutalik.bsky.social · 16/11/2025
📣 New preprint from us at phagefoundry.org 📣 A solid machine learning framework & to predict strain-level phage-host interactions across diverse bacterial genera from genome sequences alone. Avery Noonan from the Arkin Lab led this massive effort www.biorxiv.org/content/10.1...
phagefoundry.org
Phage Foundry
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Savitski Lab @savitski-lab.bsky.social · 05/11/2025
Happy to see our HT-PELSA paper now published in @natsmb.nature.com 🎊 Big thanks for the constructive review process! 📖Read the manuscript here (www.nature.com/articles/s41...) & check the thread for additional information ⬇️
nature.com
High-throughput peptide-centric local stability assay extends protein–ligand identification to membrane proteins, tissues and bacteria - Nature Structural & Molecular Biology
Li et al. further develop a high-throughput peptide-centric local stability assay that speeds up sample preparation 100-fold and extends protein–ligand identification to membrane proteins, tissues and...
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Kejia Li @kejiali.bsky.social · 05/11/2025
Finally out! 🤩 Check out our HT- PELSA for high throughput screening!
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Jeremy Barr @jeremyjbarr.bsky.social · 15/10/2025
Very excited to share the latest work from our lab, which was published today in Nature! nature.com/articles/s41... PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
nature.com
Isolation, engineering and ecology of temperate phages from the human gut - Nature
Human host-associated cellular products may act as induction agents for bacteriophages.
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joe dobbs @joedobbs.bsky.social · 15/10/2025
Check out our preprint! With new molecular mechanisms, 140 subtomogram averages, and ~600 annotated cells under different conditions, we @embl.org were able to describe bacterial populations with in-cell #cryoET. And there’s a surprise at the end 🕵️ www.biorxiv.org/content/10.1... #teamtomo
Figure 1 from the preprint
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Typas Lab @typaslab.bsky.social · 13/10/2025
Excited to share our preprint led by Carlos Voogdt et al We developed new genetic tools & genome-wide libraries for species of the Bacteroidales order; constructed saturated barcoded transposon libraries in key representatives of three genera. www.biorxiv.org/content/10.1...
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Samir Giri @isamirgiri.bsky.social · 11/10/2025
New Preprint from Voogdt et al 👇 Establishes efficient genome-wide transposon mutagenesis & barcode mutant libraries for three Bacteroidales gut bacteria, identifying shared & species-specific essential genes, non-coding elements, & toxin pathways, advancing gut microbiome functional genomics
biorxiv.org
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Pedro Beltrao @pedrobeltrao.bsky.social · 09/10/2025
new preprint: Ubiquitin is a protein modification linked with degradation but known to regulate other functions. Over 100k ubiquitination sites have been discovered and here we (@julianvangerwen.bsky.social + others) try to prioritize those most critical to the cell www.biorxiv.org/content/10.1...
biorxiv.org
The functional landscape of the human ubiquitinome
Protein ubiquitination regulates cell biology through diverse avenues, from quality control-linked protein degradation to signaling functions such as modulating protein-protein interactions and enzyme...
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Ruoshi @ruoshiz.bsky.social · 16/09/2025
Happy to see that Spacedust is now published on Nature Methods! It combines sensitive Foldseek structure search and conserved neighborhood detection to discover functionally-associated gene clusters in prokaryotic & viral genomes. 1/6🧵
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EMBL-EBI @ebi.embl.org · 25/06/2025
New impact case study outlines the impressive economic & scientific value of UniProt - the world-leading open data resource for protein sequence & functional information. Users save up to 219 hours per year, equivalent to net benefits of up to €5,475 per user. www.ebi.ac.uk/about/news/a...
ebi.ac.uk
Measuring the value and impact of UniProt
Case study shows the economic value and impact of UniProt, showing estimated annual gains of up to €5,475 per user.
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Typas Lab @typaslab.bsky.social · 23/06/2025
Excited for New Approaches and Concepts in Microbiology 2025 with sessions on Bacterial systems biology, Bacterial cell biology & protein machines, Microbiomes, Environment & evolution, Pathogenesis & phage, Antibiotic discovery, mechanisms, and resistance. #EESMicrobiology
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Khalimat Murtazalieva @khalimat.bsky.social · 08/06/2025
Very excited to share our preprint on a new resource: the Encyclopaedia of Viral Anti-Defence Systems (EVADES)! This is the main result of my PhD at ‪EMBL-EBI (@ebi.embl.org)‬ and the University of Cambridge (@cam.ac.uk‬)! 🔗 www.biorxiv.org/content/10.1... 🧵1/n"
biorxiv.org
Elucidating the mechanisms of action and evolutionary history of phage anti-defence proteins
Phages and bacteria are locked in a molecular arms race, with phage anti-defence proteins (ADPs) enabling them to evade bacterial immune systems. To streamline access to information on ADPs, we develo...
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Savitski Lab @savitski-lab.bsky.social · 29/04/2025
Want to know how the ligands interact with proteins beyond model cell lines, e.g., in tissues or bacteria? Interested in membrane targets? Check out our High-Throughput PELSA method which allows you do all these cool screenings for dozens of ligands within two hours! www.biorxiv.org/content/10.1...
biorxiv.org
High-throughput peptide-centric local stability assay extends protein-ligand identification to membrane proteins, tissues, and bacteria
Systematic mapping of protein-ligand interactions is essential for understanding biological processes and drug mechanisms. Peptide-centric local stability assay (PELSA) is a powerful tool for detectin...
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Reposted by Tara Bartolec
Alexander Harms @aharms485.bsky.social · 08/04/2025
And here it is, the completed BASEL collection finally published as early access in @plosbiology.org - see the thread for more details. 🤗🧬🎣
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Cell - a Cell Press journal @cp-cell.bsky.social · 19/03/2025
Now online! Jumbo phage killer immune system targets early infection of nucleus-forming phages
dlvr.it
Jumbo phage killer immune system targets early infection of nucleus-forming phages
Jumbo phage killer (Juk) system, a common bacterial immune system in Proteobacteria, recognizes and targets the early phage infection vesicle specific to ϕKZ-like jumbo phages, terminates phage infection, and saves the bacterial cell.
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Typas Lab @typaslab.bsky.social · 26/03/2025
Join our favorite microbiology meeting! Fantastic talks, poster sessions, new technologies, and all the hot areas of microbiology in a great environment - experts in cell & systems biology, microbiomes, environment & evolution, pathogenesis, phage & antibiotics DON’T MISS abstract deadline, April 1
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Protein Data Bank in Europe (PDBe) @pdbeurope.bsky.social · 11/03/2025
Updated validation reports are now available for structures determined using integrative & hybrid methods (IHM) that extends to structures derived from Crosslinking-MS data, along with previously supported Small Angle Scattering (SAS) data! ⬇️ Read more⬇️ www.wwpdb.org/news/news
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EMBL-EBI @ebi.embl.org · 03/03/2025
🚀 #AlphaFold Database update AlphaFold DB now integrates The Encyclopedia of Domains (TED) – a resource designed to systematically identify & classify structural domains within AlphaFold-predicted protein structures. www.ebi.ac.uk/about/news/u... @pdbeurope.bsky.social
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Ben Adler @benadler.bsky.social · 26/02/2025
It is finally out! Muntathar Al-Shimary, @doudna-lab.bsky.social , @cresslab.bsky.social and I present a gene knockdown tool that works in diverse bacteriophages: CRISPRi through antisense RNA Targeting (CRISPRi-ART)! Check it out @naturemicrobiol.bsky.social www.nature.com/articles/s41...
nature.com
CRISPRi-ART enables functional genomics of diverse bacteriophages using RNA-binding dCas13d - Nature Microbiology
Leveraging RNA-targeting dCas13d enables selective interference with phage protein translation and facilitates measurement of phage gene fitness at a transcriptome-wide scale.
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 22/02/2025
In our latest review, we explore 12 deep-learning tools for metagenomic analysis, covering their strengths, limitations, and key applications. We hope it serves as both a resource and inspiration for new ways to analyze metagenomic data. Great work by Eli Levy Karin! 📄 doi.org/10.1093/nsr/...
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Aude Bernheim @audeber.bsky.social · 19/02/2025
New version of DefenseFinder available defensefinder.mdmlab.fr (& cli) Now encompassing 263 systems (+111 this year..!). Thanks @ftesson.bsky.social, DefenseFinder grandmaster. Full list of systems here: defense-finder-models/List_system_article.md at master · mdmparis/defense-finder-models
defensefinder.mdmlab.fr
Webservice | DefenseFinder webservice and knowledge base
On this site, you can freely use (without any login) the DefenseFinder webservice (see below) and get help to navigate the ever expanding world of defense systems.There is a collaborative knowledge ba...
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miraburtscher.bsky.social @miraburtscher.bsky.social · 10/02/2025
Excited to see this huge piece of work out 🎉 Congrats to everyone involved! If you ever wanted to read a 8in1 paper grab a cup of tea and enjoy 📖
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Savitski Lab @savitski-lab.bsky.social · 10/02/2025
We are very happy to present our work on N-glycoproteomics!🍬 Our method enables the selective enrichment and precise quantification of intact N-glycopeptides to explore the dynamics of glycosylation microheterogeneity. www.nature.com/articles/s41...
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Alexander Harms @aharms485.bsky.social · 06/02/2025
🚨 🧬 Updated preprint on the completed BASEL collection - what's new? Some fun with bacterial immunity and a new P22 relative infecting E. coli K-12. A thread 🧵
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Typas Lab @typaslab.bsky.social · 23/12/2024
Excited to share our preprint with @savitski_lab led by @tarabartolec.bsky.social, @KMitosch & Clément Potel! We uncovered a mechanism by which the T7 phage broadly counteracts DNA-targeting bacterial defenses by deploying a loose cannon kinase in its genome @embl.org www.biorxiv.org/content/10.1...
biorxiv.org
Pervasive phosphorylation by phage T7 kinase disarms bacterial defenses
Bacteria and bacteriophages are in a constant arms race to develop bacterial defense and phage counter-defense systems. Currently known phage counter-defense systems are specific to (the activity of) ...
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Tara Bartolec @tarabartolec.bsky.social · 23/12/2024
1/11 - With Karin Mitosch and Clément Potel + colleagues in Savitski lab and @typaslab.bsky.social @embl.org, I’m very happy to share our discovery of a hyper-promiscuous phage protein kinase (T7K) which broadly deactivates bacterial defenses! 🦠 www.biorxiv.org/content/10.1...
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Itai Yanai @itaiyanai.bsky.social · 10/12/2024
You have to believe you can write a manuscript in a week, so that it will end up only taking three months.
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Drew Berry wehi.tv @drewberry.bsky.social · 04/12/2024
Delighted to publish my new molecular animation: DNA Break Repair by Homologous Recombination youtu.be/Xe-83tBcxhs
youtu.be
DNA Break Repair by Homologous Recombination (2024) Drew Berry wehi.tv
YouTube video by WEHImovies
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Ben Neely @benneely.com · 04/12/2024
The holobiont is more than just corals, and has spin off terms (can you say holoproteome? better than metaproteome imo). Makes sense and actually love the term is going places. (Michelle Heck, not here yet, just share this paper with me) #proteomics www.science.org/doi/10.1126/...
science.org
The disciplinary matrix of holobiont biology
Uniting life’s seen and unseen realms guides a conceptual advance in research
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Kermit Murray @kkmurray.bsky.social · 04/12/2024
(BioRxiv All) Improving AlphaFold 3 structural modeling by incorporating explicit crosslinks: AlphaFold 3 has significantly advanced the modeling of macromolecular structures, including proteins, DNA, RNA, and their interactions with small molecules or… dlvr.it/TGZQsY #BioRxiv #MassSpecRSS
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Slendercat @elesh.bsky.social · 26/11/2024
The eucaryote needs a bacteria which needa a phage which needs a kinase which needs a rna which needs a solvent molecule to steer the thing
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 23/11/2024
Our Big Fantastic Virus Database (BFVD) is now published NAR! It contains protein structure predictions of major viral clades, enhanced by petabase-scale homology search and it's explorable on the web. 🌐 bfvd.foldseek.com 💾 bfvd.steineggerlab.workers.dev 📄 academic.oup.com/nar/advance-...
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