Thomas Clavel

A place to be 👇 Highly recommended ⭐⭐⭐⭐⭐

Botnar Institute of Immune Engineering - BIIE (Zürich): Postdoctoral Researcher (100%): Mechanisms of action of mucosal adjuvants Botnar Institute of Immune Engineering - BIIE has a job opening for Postdoctoral Researcher (100%): Mechanisms of action of mucosal adjuvants in Zürich (published: 30.10.2025). Apply now or check the ...

We have an opening for a postdoctoral researcher in my group at the Botnar Institute for Immune Engineering in Basel, Switzerland. The project is aimed at developing novel mucosal adjuvants for application in oral vaccines. Deadline to apply 16.11.25! Please re-post 🔬🧬

join.com/companies/im...

☕ Grab your coffee and join our next NFDI4Microbiota Coffee Talk! 📅 Mon, 27 Oct 2025 | 14:30–15:30 CET
🎙️ Daniel Straub (QBiC Tübingen)
💬 “Meta-omics Analysis at a Bioinformatics Core Facility – As FAIR as Possible”. More info here: nfdi4microbiota.de/c...

A toolkit for transposon libraries and functional genomics in intestinal Bacteroidales https://www.biorxiv.org/content/10.1101/2025.10.10.681549v1

Development of a GC-MS/MS method to quantify 120 gut microbiota-derived metabolites The gut microbiota produces metabolites that are important for host physiology and have critical roles in the development of diseases, such as metabolic disorders, cardiovascular diseases, and cancer....

📍Paper alert 📍

Our new preprint is available on: chemrxiv.org/engage/chemr...

Here, we show the development of a GC-MS/MS method for the quantification of 120 compounds produced by gut bacteria, including SCFA, indols, organic acids, and amino acid derivatives.

Function-Based Selection of Synthetic Communities Enables Mechanistic Microbiome Studies Abstract. Understanding the complex interactions between microbes and their environment requires robust model systems such as synthetic communities (SynCom

The main work from my time in Aachen is now out 🎉 if you have wanted to make a SynCom that captures the functional-landscape of microbiota, MiMiC2 makes that possible based on metagenomic data! 1/7 doi.org/10.1093/isme...

Interested in the design of defined microbial communities for fundamental research and applications? Hope this work & tool will help you 👇 As always @tcahitch.bsky.social has been a driving factor ⭐⭐⭐! github.com/ClavelLab/Mi...; academic.oup.com/ismej/advanc...

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 💉🧬🦠🔬🧫

We’re heading to Jena for two exciting events!
📍 DGHM 2025 – 24 Sept
Workshop: Data madness: Navigating Host Microbiomes
Featuring VirJenDB – virus sequence discovery & analysis
Details 👉 programme.conventus....

Comprehensive analysis of microbial content in whole-genome sequencing samples from The Cancer Genome Atlas project An analysis of TCGA whole-genome sequencing samples yields a comprehensive resource for investigating the role of microbes in cancer.

We're still not finding any good evidence for a microbiome in any cancer type: see our new paper in @ScienceTM led by PhD student Yuchen (Peter) Ge www.science.org/doi/10.1126/... and the accompanying news piece, www.science.org/content/arti...

Interested in exploring prophages in your (meta)genomes, but don't know how and where to start? We've put together a beginners guide to exploring viral diversity in prokaryotes @marievasse.bsky.social
@sebwielgoss.bsky.social
@oxunipress.bsky.social

Planning, sequencing… and now analysis. 📊
☕ Coffee Talk: Getting Your Microbiome Research on the Road – Managing Your Data using Qiita
🗓️ Aug 25, 2025 | 14:30 CEST
👉 More info: tinyurl.com/2m9jpf2p
👉 Workshop (Oct 22–24, Gießen): tinyurl.com/4w8mczh7

🌍 Open Call! RWTH Aachen University invites postdocs from outside the EU to apply for the “Port to Europe” Fellowship (24 months funding, all disciplines). Start your research journey at one of Europe’s top universities! 🚀 Deadline: Oct 5, 2025. 👉https://rwth-aachen.de/go/id/botjje/lidx/1

Do you have experience in metabolomics/lipidomics/exposomics?

Check out the EMBL ARISE2 Fellowship Programme!
🔗 www.embl.org/training/ari...

📩 Contact: Juan Antonio Vizcaíno — Team Leader, EMBL-EBI
🔗 www.ebi.ac.uk/people/perso...

📌 Applications close soon!
📆 30/09/2025
More info below👇

Group Leader – Molecular Systems Biology Unit Are you ready to lead groundbreaking research in Molecular Systems Biology? Join us at EMBL! We are seeking a motivated scientist to lead an independent research group, addressing original biological ...

Ready to lead pioneering research that bridges systems-level investigations of biological systems to molecular mechanism? The EMBL Molecular Systems Biology Unit in Heidelberg is hiring a Group Leader!

Non-antibiotics disrupt colonization resistance against enteropathogens Nature - Non-antibiotic drugs from a wide range of therapeutic classes can alter the ability of gut commensals to resist invasion by enteropathogens, a previously underappreciated side effect of...

Finally online!
Our latest research is out @nature.com: We show that non-antibiotic drugs can disrupt colonization resistance, raising the risk of enteric infections.
rdcu.be/ewwrG

A pure « délice » to have followed this story unfolding under our eyes.
Congrats @ameliejoly.bsky.social brilliantly followed-up by @lucasrebiffe.bsky.social.
@filipedevadder.bsky.social and I were/are so lucky to work with gifted Ph’D candidates like you!

Try cloud-based microbiome workflows with CloWM—no installation needed!
📍 4th NFDI4Microbiota Annual Conference |Cologne
📆 Oct 2 | Registration is free
🔗 events.hifis.net/eve...

Outstanding life scientists elected to the EMBO Membership – Press releases – EMBO Sixty-nine new members join the community of leading life scientists in Europe and beyond

Congrats @baerboletta.bsky.social 👏 Highly deserved & best possible ambassador for the field www.embo.org/press-releas...

Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances - Nature Microbiology Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances (PFAS), commonly known as forever chemicals, in intracellular aggregates. Colonization of gnotobiotic mice with bioaccumulating bac...

#NewResearch

🚨Out now!

Human gut bacteria bioaccumulate forever chemicals, in intracellular aggregates and colonization of gnotobiotic mice with these bioaccumulating bacteria increases faecal PFAS excretion. @kiranrpatil.bsky.social

#MicroSky #MicrobiomeSky 🦠

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

Join our NFDI4Microbiota Coffee Talk: Ivan Belyaev @microverse.bsky.social presents BEXIS2, a flexible platform for microbiology metadata. June 30 at 14:30 CEST.
More info here: tinyurl.com/mudhdnra

🧫 Registration is open!
Join the 4th NFDI4Microbiota Conference in Cologne
📅 Sept 30–Oct 2 | Theme: From Lab to Publication
Hands-on workshops, keynotes, posters | Registration is free
📝 Register by Aug 31: events.hifis.net/eve...
#FAIRdata #Microbiome

Guidelines for preventing and reporting contamination in low-biomass microbiome studies Nature Microbiology - In this Consensus Statement, the authors outline strategies for processing, analysing and interpreting low-biomass microbiome samples, and provide recommendations to minimize...

Hope this is useful - consensus statement "Guidelines for preventing and reporting contamination in low-biomass microbiome studies" rdcu.be/er3Io

The #NFDI4Microbiota Flex Funds Call 2026 opens June 16!
Support for infrastructure, workflows, training & more in microbiology.
Deadline: Aug 11. Details: nfdi4microbiota.de/n...
#OpenScience #FAIRdata

Proton-pump inhibitors increase C. difficile infection risk by altering pH rather than by affecting the gut microbiome based on a bioreactor model Clostridioides difficile infections often occur after antibiotic use, but they have also been linked to proton-pump inhibitor (PPI) therapy. The underlying mechanism – whether infection risk is due...

Ever wondered why proton pump inhibitors raise the risk of C. diff infections? Is it due to pH shifts or direct antibacterial effects on the gut microbiome? We think it’s the pH. 🧪💡 Dive into Julia & Patrick’s new paper for the full story! 📖👇 #Microbiome #PPI
doi.org/10.1080/1949...

Low-input RNA-seq suggests metabolic specialization underlying morphological heterogeneity in a gut commensal bacterium Bornet et al. investigate the morphological heterogeneity of Bacteroides thetaiotaomicron cells observed both in laboratory culture and inside the mammalian GI tract. The authors show that cell size i...

Our latest: www.cell.com/cell-reports/fulltext/S2211-1247(25)00615-1. Links Bacteroides cell size w/ gene expression. Protocol works even for single cells. 🦠
Shoutout to @elisebor.bsky.social, @emmanuel-saliba.bsky.social, @lbarquist.bsky.social, @jorg-vogel-lab.bsky.social, Till Strowig & KC Huang.

Call for our new PhD program is open. Come join one of our labs at Gulbenkian Institute for Molecular Medicine - Lisbon-Oeiras, Portugal. Help us spread the word

Join NFDI4Microbiota as a participant for 2026–2031! Gain early access to tools, bilateral exchange via an early-career ambassador, and targeted support for ELNs, DMPs, SOPs & FAIR data. Apply by June 10, 2025: www.nfdi4microbiota....

Call for Group Leaders - Join us at GIMM, 7 days till the deadline!

Join us in Tubingen as a Junior Research Group Leader if you do research on #ESKAPE pathogens and infections and are interested in the highly cooperative environment of @dzif.bsky.social‬ and @cmfi.bsky.social ! Please send your application or forward to colleagues!
uni-tuebingen.de/universitaet...