Elisabetta Cacace

Excited to announce my upcoming @snsf.ch Ambizione research group at EPFL on bacteria-host interactions, combining systems approaches and microphysiological models.
🚨 We have an open PhD position! More info on projects and how to apply here: elisabettacacace.github.io/BHI-Lab/
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Research Group Leader Do you want to lead groundbreaking research in computational biology? Join us at EMBL-EBI! EMBL's European Bioinformatics Institute (EMBL-EBI) is seeking talented and highly-motivated scientists to jo...

We are hiring for group leaders again — EBI is a great place to start your research group!

embl.wd103.myworkdayjobs.com/EMBL/job/Hin...

Multi-layered ecological interactions determine growth of clinical antibiotic-resistant strains within human microbiomes Nature Communications - The role of ecological factors in modulating the spread of antibiotic-resistance bacteria in the gut remains unclear. Here, the authors use anaerobic microcosms to study the...

🚨 Excited to share our new paper is out! 🎉
We show how interactions within gut microbiomes allow certain antibiotic-resistant E. coli strains to persist even without antibiotics, helping explain how resistance is maintained in the human gut.

Now published in @natcomms.nature.com rdcu.be/eOf63

The JEDI marker as a universal measure of planetary biodiversity Despite its critical importance in the formation and maintenance of ecosystems and homeostasis on Earth, biodiversity remains a complex and non-unified concept. Consequently, standards for measuring b...

The JEDI marker - a new approach for measuring #biodiversity that captures all domains of life and is applicable across biological and ecological scales. It's time to change the way we perceive biodiversity - www.biorxiv.org/content/10.1...

Fantastic talk, Alexander!

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...

New ERC funded computational postdoc position in my lab! We are looking for someone who will study the genomics of bacterial evolution using samples from experimental evolution and clinical trials. Lots of opportunities for interesting and fun collaboration!
my.corehr.com/pls/uoxrecru...

Come and be my colleague at the Dunn School! It‘s a brilliant place to work and exciting to be building up our immunology team. Do apply. Do pass on the news 💉🧬🦠🔬🧫

Metabolic Crossroads: AMDHD2 Couples the Hexosamine Biosynthetic Pathway to Acetyl-CoA Homeostasis in Pluripotent Stem Cells Pluripotent stem cells (SCs) rely on metabolic rewiring to regulate self-renewal and differentiation. The hexosamine biosynthetic pathway (HBP) integrates multiple metabolic inputs to produce uridine ...

🎉 We’re excited to share our very first preprint!! 🎉
"Metabolic Crossroads: AMDHD2 Couples the Hexosamine Biosynthetic Pathway to Acetyl-CoA Homeostasis in Pluripotent Stem Cells"
👉 doi.org/10.1101/2025...

#FirstPreprint #StemCells #Metabolism #Epigenetics #AcetylCoA #HBP #Pluripotency #NewScience

The natural diversity of E. coli transporter-dependent capsules Serotyping of bacteria using genomic information ( in silico serotyping) has increasingly replaced serology. However, the E. coli capsule serotyping system has been largely abandoned since the 1990s, ...

How diverse are E. coli capsules? How are they linked to ecology and disease? Find out with > 25,000 genomes and MAGs including undersampled environments and hosts from all over the world.
Great genomics - glycobiology synergy in Sunagawa and Slack groups at ETH!
www.biorxiv.org/content/10.1...
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We're very happy to release our new database Metalog metalog.embl.de ! It offers manually curated and harmonised contextual data for 110k metagenomics samples across the globe, incl. precomputed taxonomic profiles, for interactive browsing and for download 🧵 1/7

#microsky

As a first-year oncology fellow at Memorial Sloan Kettering in New York City I had the privilege of rotating through all of the clinics. Lung, beast, ovarian, leukemia, lymphoma. 1/7

Our paper demonstrating that within-species warfare interactions are ecologically important on human skin is now published in Nature Micro! www.nature.com/articles/s41...

The team's first preprint is out!

Led by ‪
‪@vishnuprasoodanan.bsky.social‬‬ & @omaistrenko.bsky.social , we asked a question (almost) as old as microbiology: how many prokaryotic species exist on Earth? More specifically, how much diversity is "hiding" in existing metagenomic data?

A 🧵.

New approaches and concepts in microbiology

Looking forward to #EESMicrobiology and excited to present our latest work on E. coli capsules on Friday! www.embl.org/about/info/c...

Check out this framework for de novo protein design by @mjendrusch.bsky.social and Kashif Sadiq! Happy we could contribute with our favourite phage defence system.

Habemus pubScan! 🎉

Introducing pubScan, a new way to explore your PubMed publications through the lens of co-authorship.

🔍 Check it out at: pubscan.expressrna.org

❤️ Love it? Show your support by liking, sharing, and spreading the word.

#pubscan

When things add up: environmental structure and microbial interactions drive antibiotic-resistance plasmid evolution Antimicrobial resistance is recognized as a major global health threat. Pathogens can rapidly evolve resistance which diminishes the impact of antimicrobial treatments. The presence of other microbes ...

When things add up: environmental structure and microbial interactions drive antibiotic-resistance plasmid evolution.

New paper from the lab, and the third chapter of Lars Zandbergen’s thesis!

www.biorxiv.org/cgi/content/...

Our paper has been selected among Editors' Highlights for Microbiology! @natcomms.nature.com www.nature.com/collections/... 🧪🔬🧫

Here are our ideas on developing tools and technologies for anaerobic bacteria! We hope you enjoy the read as much as we enjoyed brainstorming on the topic...

Thanks Annique!

Uncovering nitroxoline activity spectrum, mode of action and resistance across Gram-negative bacteria - Nature Communications Nitroxoline is a bacteriostatic quinoline antibiotic, known to form complexes with metals, with few clinical applications. Here, Cacace et al. show that the compound displays a broad activity spectrum...

Viable link: www.nature.com/articles/s41...

Do we really know the antibiotics that we already have?

Check out our story on 60y old drug nitroxoline and its new tricks!
@goetheuni.bsky.social @embl.org
www.nature.com/articles/s41...

+ great piece from the synchrotron @esrf.fr where we chased nx effects on metals
www.esrf.fr/home/news/ge...

Boosting vaccines with harmless bacteria to fight intestinal pathogens - Dunn School Published in Science, a ground-breaking study by the Slack group reveals how combining vaccines with friendly bacteria can boost vaccination efficacy and potentially reduce reliance on antibiotics.

New study by @mucosalimmunology.bsky.social (Dunn School and @ethzurich.bsky.social) with Médéric Diard (@biozentrum.unibas.ch) reveals how combining vaccines with friendly bacteria can boost vaccination efficacy and potentially reduce reliance on antibiotics

www.path.ox.ac.uk/news-article...

Sublethal systemic LPS in mice enables gut-luminal pathogens to bloom through oxygen species-mediated microbiota inhibition Nature Communications - Acute systemic immune activation may affect gut-luminal colonisation dynamics. Here, the authors show that LPS exposure in mice elevates gut-luminal oxygen species levels,...

I am very excited to share our latest publication on the effect of systemic #endotoxin on intestinal #microbiota spearheaded by the brilliant Sanne Kroon at the Hardt lab @eth-dbiol.bsky.social @ethzurich.bsky.social @naturecomms.bsky.social

👉🏼 rdcu.be/eelLn

Excited to share our paper published in @currentbiology.bsky.social that explores the consequences of having multiple genomes in a bacterial model system and it’s benefits in a multidrug environment ! www.cell.com/current-biol...

Super cool Shraddha!!

Brochado and Maier labs in Germany are looking for a PhD student to study horizontal gene transfer in bacteria. ENDAMR Marie Curie doctoral network (endamr.eu) - an amazing opportunity to work with top scientists in the field all around Europe!
www.cmfi.uni-tuebingen.de/mariecuriephd

Postdoctoral researcher –Understanding bacterial metabolism in the urinary tract

Interested in microbial #metabolism, #mucosalbiology and #UTI? Then check out the open postdoctoral position in the Mucosal Immunology Group at ETH Zurich! NB: All applications must go via the ETH job portal:

www.jobs.ethz.ch/job/view/JOP...

Closing date: 24th Feburary
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"The world has been through anti-science cycles before"

not microbiology related, but a 🧵 worth reading