Benchmarking of shotgun sequencing depth reveals the potential and limitations of shallow metagenomics and strain-level analysis Nature Microbiology - A comparison of sequencing of complex mock communities performed at multiple depths and analysed using different methods establishes minimum standards that can ensure the...

Strain diversity influences microbiome functions, and can be assessed with metagenome-assembled genomes (MAGs). But many MAGs are inaccurate! Benchmarking of shotgun sequencing by ⭐ @treichelnicole.bsky.social ⭐ with @nfdi4microbiota.bsky.social , in @natmicrobiol.nature.com 👉 rdcu.be/feAWc

AI is starting to look like pseudoscience Not all of it, but some scientists are too eager to believe their own hype

In my latest column, I explain some of my reasons for being deeply skeptical about AI models that claim to understand DNA, genes, and genomes: stevensalzberg.substack.com/p/ai-is-star...

📢 Are you at #VAAM2026?

👉 Stop by the NFDI4Microbiota booth to learn how we can support you with training, data analysis, and making your microbiome research easier to share, reuse, and scale.

And don’t miss today’s panel discussion at 1:30 in Lecture Hall B!

We’d love to meet you 👋!

Are you at #DGE26? 👋 So are we!

Stop by the NFDI4Microbiota booth to explore how we can help make your microbiome research FAIR and easier to share, reuse, and amplify.

Let’s connect, exchange ideas, and talk data. We’d love to meet you!

#microbiome #NFDI #FAIR #rdm

Seeon - Deutsche Gesellschaft für Hygiene und Mikrobiologie Microbiota, Probiotics and Host    Seeon- Save the date 2026 Registration Abstract Template 2026   We are looking forward to meeting you there! Don’t forget your swimwear, sunscreen and running gear ...

Registration for the 18th Annual Seeon Conference on Microbiota, Probiotics and Host is now open! 🎉

We’re looking forward to welcoming you in Seeon!

When: June 24-26
Where: Seeon Monastery, Germany (near Munich)
Program: www.dghm.org/seeon/
Registration: app1.edoobox.com/SPP1656/Seeo...

☕ Join our next NFDI4Microbiota Tandem Coffee Talk!
📅 Mon, 23 Feb 2026 | 14:00–15:00 CET
🎙️ Prof. Dr. Bas E. Dutilh & Dr. Noriko Cassman
💬 “Learning phage-host interactions from curated big data” & “VirJenDB: a FAIR (meta)data and analysis platform for viruses”

👉 More info here: tinyurl.com/5y7h6wfh

Krebsforscherin: "Prävention ins Zentrum stellen" Ärztin Carolin Schneider forscht mit KI-Experten an der RWTH Aachen zur Krebsprävention. Ziel ist die personalisierte Strategie: "Wir glauben, dass wir gute Modelle entwickeln können, die die Einzel-F...

Prof. Carolin Schneider von der Uniklinik RWTH Aachen forscht mit KI-Fachleuten zur Krebsprävention. Ziel ist die personalisierte Strategie: "Wir glauben, dass wir gute Modelle entwickeln können, die die Einzel-Faktoren berücksichtigen, die jemand mitbringt."

➡️ www1.wdr.de/mediathek/au...

We’re hiring 2 Postdocs (f/m/d) in Drug–Microbiome–Host Interactions 🦠💊

Focus: how non-antibiotic drugs shape the gut microbiome, drug efficacy & side effects.

#PostdocJobs #Microbiome #AcademicJobs

Full job ad:
lisamaierlab.com/wp-content/u...

Secondary bile acid production by gut bacteria promotes Western diet-associated colorectal cancer Background Western diet and associated production of secondary bile acids (BAs) have been linked to the development of sporadic colorectal cancer (CRC). Despite observational studies showing that seco...

Now published 🔥 Feeding your gut microbes with complex carbohydrates can help preventing colorectal cancer by reducing the production of secondary bile acids. Perhaps NiMe diet @jenswalter15.bsky.social? THX team & Sören Ocvirk ⭐ Thx www.sfb.tum.de/1371/microbi.... Article 👉 doi.org/10.1136/gutj...

Save the Date! 📅

The NFDI4Microbiota Annual Conference 2026 will take place 15–17 September 2026 and will be a joint event with other biodata-related NFDI consortia. Stay tuned for more details!

#onenfdi #NFDI4Microbiota #rdm #microbiota

Development of a GC-MS/MS method to quantify 120 gut microbiota-derived metabolites - Analytical and Bioanalytical Chemistry 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....

📍Our paper is out!📍

Here, we show the development of a GC-MS/MS method for the quantification of 120 compounds produced by gut bacteria, including short-chain fatty acids, indols, nucleotides, organic acids, and amino acid derivatives.
Check it out!

link.springer.com/article/10.1...

Franziska Faber and I are recruiting shared postdocs, PhD students to work on Fusobacterium & new BGCs. www.helmholtz-hiri.de/fileadmin/HI...

New paper from the lab!
Led by Patrick Müller: we show that non-antibiotic compounds — but not macrolide antibiotics — can induce an efflux pump that protects Bacteroidaceae from macrolides.
A neat twist on drug–microbe interactions... www.tandfonline.com/doi/full/10....

📣 Open position: We are looking for a new #ScientificLead for the #SILVA database 🧬🖥️

📣 Open position: We are looking for a new #ScientificLead for the #SILVA database 🧬🖥️

You will be responsible for guiding the development of this important resource and for curating the SILVA taxonomy🌳and more!

👉 www.dsmz.de/dsmz/career/...

Read and share ‼️

#sciencejobs 🦠🧪 #career #taxonomy

Want to delineate genera? We have been optimising POCP, and propose POCPu, which stops the 'double counting' of proteins in POCP by only allowing unique matches. We also speed up, and benchmarked, the analysis using DIAMOND; peerj.com/articles/202... (now implemented in Protologger)

Great work from our FAIR science master Charlie (www.linkedin.com/in/charliepa...) to delineate bacterial genera: peerj.com/articles/202.... We hope this will help many. The POCPu calculation is now implemented in protologger.bi.denbi.de by @tcahitch.bsky.social. Thanks for the hard work you 2 ⭐⭐

Need a hand with your #Nextflow or #nfcore pipeline?
Join our weekly drop-in session — every Friday 10–11 CET with Daniel Straub (Uni Tübingen).
Ask questions, get tips, and connect with the community!
📍 Zoom: tinyurl.com/mwz84xvb
#Bioinformatics #OpenScience #NFDI4Microbiota

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 www.biorxiv.org/content/10.1101/2025.10....

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