That's a wrap on #EESMetabolicEco! 🙌 A huge thank you to all of our amazing participants, speakers, and organisers for an inspiring 4 days of discussions on the metabolic interactions that shape ecosystems across every scale.

Great seminar from Kaili Fu from the Zimmermann group, who shared her postdoctoral work on gut microbiome-mediated drug-drug interactions in colorectal cancer treatment. Thanks, Kaili, for giving us a glimpse into this exciting work at the interface of microbiome research and cancer therapy!

🎓 Congratulations to Nikita Denisov on graduating! We’re delighted to celebrate this well-earned achievement and thank Nikita for his work and contributions, and for being a great colleague!

We are happy to welcome Pia Mozdzanowski, a visiting PhD student from the Ewald lab at EMBL-EBI. Her work focuses on inferring pesticide modes of action from image- and metabolomics-based screens in human cell lines. We’re excited for the exchange across metabolomics, imaging, and toxicology!

We are happy to welcome Guilherme Hernandez, a PhD student from the University of São Paulo, Brazil 🇧🇷. His research uses metabolomics and microbial biotransformation of bile acids to characterize breast milk bile acids and investigate their role in early-life gut microbiota maturation.

We welcome Kertu Liis in our lab! She is working on the microbiome-based detection of colon cancer in precancerous stages and on drug-microbiome interactions in Estonian Microbiome Cohort @tartumicrobiome.bsky.social

My first EMBL project uncovering synthetic steroid bacterial metabolism is now available publicly! My favourite part is the discovery of novel desmolase enzyme - see the preprint how we have found it 🧬💊🦠

bioRxiv Microbiology@biorxiv-microbiol.bsky.social · 2mo ago

Bacterial metabolism of synthetic steroids across ecosystems reveals diverse biotransformation products, reactions, and enzymes https://www.biorxiv.org/content/10.64898/2026.06.05.730323v1

We are happy to welcome @elboudlalihanane.bsky.social as a new member of the Zimmermann group at @embl.org 🎉 As part of @mmpu.bsky.social CRC project, she will focus on metabolomics and analytical method development, bringing her analytical chemistry expertise to support colorectal cancer research.

We welcome Leandro Presenza to the Zimmermann Lab 🎉 as a PhD student trainee. Leandro is a PhD candidate at University of São Paulo 🇧🇷. In his time @embl.org, he will focus on investigating the metabolome associated with postprandial metabolic responses using LC-MS.

We welcome Cecilia Cristina de Souza Rocha! Cecilia is a postdoctoral fellow at the University of São Paulo, Brazil 🇧🇷 and joins our group as a visiting researcher to investigate the role of the gut microbiota in the metabolism of antituberculosis drugs.

Exciting times at the Zimmermann Lab! We had a fantastic joint retreat with the EMIL group @jenspuschhof.bsky.social from DKFZ, filled with inspiring discussions, collaborative brainstorming, and plenty of science fun. Looking forward to new ideas and projects emerging from this great team-up!

Meet Tímea, who started recently as scientific officer at the metabolomics core facility @embl.org. Her work will focus on routine metabolomics and lipidomics analyses, developing new protocols and workflows, improving LC–MS methods, and supporting users. contact info: www.embl.org/groups/metab...

Excited to share the upcoming EMBO | EMBL Symposium “Metabolic interactions shape ecosystems” 🧬🌍 📍 Heidelberg & online 📅 21–24 July 2026 Abstract deadline: 14 April! More info & registration: www.embl.org/about/info/c... #Metabolism #Microbiome #SystemsBiology #Ecology #EMBL #EMBO

Metabolic interactions shape ecosystems

embl.org

Excited to share the upcoming EMBO | EMBL Symposium “Metabolic interactions shape ecosystems” 🧬🌍 📍 Heidelberg & online 📅 21–24 July 2026 Abstract deadline: 14 April! More info & registration: www.embl.org/about/info/c... #Metabolism #Microbiome #SystemsBiology #Ecology #EMBL #EMBO

Metabolic interactions shape ecosystems

embl.org

Last month, @fabianspringer.bsky.social defended his PhD entitled "Integrative Multi-Omics Analyses of the Cancer Tissue Microbiome". He investigated how intra-tumoral bacteria relate to host tumor features across genomic, transcriptomic, and metabolic layers. Congrats Dr. Springer! 🎈

LCGC International recently spoke to Nikita Denisov and Michael Zimmermann, two of the authors of the our recently published paper that enables robust investigation of microbiota–host metabolic interactions. You can check the interview here: www.chromatographyonline.com/view/compreh...

Comprehensive GC–MS/MS Quantification of Gut Microbiota–Derived Metabolites Across Intestinal and Systemic Tissues | LCGC International

To enable robust investigation of microbiota–host metabolic interactions, a targeted gas chromatography–tandem mass spectrometry (GC–MS/MS) method was developed and validated by a research group at the European Molecular Biology Laboratory (Heidelberg, Germany) for the simultaneous quantification of 120 chemically diverse gut microbiota–derived metabolites across multiple biological matrices. LCGC International recently spoke to Nikita Denisov and Michael Zimmermann, two of the authors of a paper resulting from this work.

chromatographyonline.com

Rewiring of oncogenic signaling in #DrugResistance is a moving target. In our new study, we used biophysical phosphoproteomics to investigate #BRAF mutant cancer, linking phosphorylation changes to protein function and #MolecularMechanisms through #Multi-Omics integration. tinyurl.com/funsignaling

Greetings from Anders Lauszus. He is a Lab technician in the making from the Business College of Aarhus in Denmark. He will be joining the Zimmermann lab on the logistical front and various research tasks with the lab. @embl.org

🚨 Do you work on microbial-mediated biotransformation of chemical compounds? 🧪 We would value your input to help us develop a standardized reporting framework for Xenobiotics–Microbiome interactions! 👉 Take the short survey (6–8 min): forms.gle/JNATejDrV2LR... ⬇️ ⬇️ ⬇️

MIX-MB (Minimum Information about Xenobiotics-Microbiome Biotransformation) - Community Consensus Survey

This survey aims to establish the Minimum Information about Xenobiotics-Microbiome Biotransformation (MIX-MB) reporting standards. As we move toward an era of AI-driven discovery, the structural and f...

forms.gle

⭐Research highlight: Social interactions in the nursery have a huge impact on babies’ and toddlers' #microbiome development, according to a new paper in Nature https://www.nature.com/articles/d41591-026-00006-6

Babies share microbiomes at nursery

A study shows that social interactions in the nursery have a huge impact on babies’ microbiome development and may facilitate rapid strain recovery after antibiotic treatment.

nature.com

We are delighted to welcome Alder (@alder-e.bsky.social) to our group! They are joining the lab as a scientific trainee and will be assisting with the chemical profiling of TREC samples. @embl.org @embltrec.bsky.social

We are happy to welcome Elisabete Morais as a new member of Metabolomics Core Facility at @embl.org 🎊 In her postdoctoral work, she will focus on the development and application of NMR-metabolomics in microbiome research 🔬🦠

EMBL is deeply saddened by the passing of our Interim Director General Peer Bork, a pioneering scientist who left an indelible imprint on life science research in Europe and beyond. We extend our deepest condolences to his family, friends, and colleagues. www.embl.org/news/people-...

📍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...

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....

link.springer.com

Greetings from the TREC Symposium, which gathered people from EMBL and beyond to share collected results and data! Lot's of interesting science has already been shown over the past days! Our lab presented work on marine chemical pollution. We are excited for the talks today! @embltrec.bsky.social

Nobel laureate Svante Pääbo, Director at the Max Planck Institute for Evolutionary Anthropology in Leipzig, will deliver the 2026 EMBL Kafatos lecture. The lecture will explore how traces of Neanderthal DNA might shape human biology and health today. www.embl.org/news/embl-an...

It’s not only medications—environmental chemicals can also inadvertently harm our gut microbes. Excited to have contributed a bit to this important study!

Stephan Kamrad@skamrad.bsky.social · 8mo ago

Our paper mapping the effects of hundreds of pesticides and industrial chemicals on gut bacteria is out in @natmicrobiol.nature.com today! Turns out many such chemicals, although labelled as 'fungicides' or similar, can inadvertently inhibit friendly gut bacteria. www.nature.com/articles/s41...

Next week at #microbiome (a symposium exploring the critical role of the microbiome in health, disease, and therapeutic innovation) in Frankfurt 🇩🇪 Nicola Segata will talk about the microbiome in nutrition and cardiometabolic health. Full program here: gsh.idloom.events/microbiome/p...

Microbiome

Join us for a symposium exploring the critical role of the microbiome in health, disease, and therapeutic innovation. Leading experts will present cutting-...

gsh.idloom.events

Are you a chemical biologist? Meet experts and peers at 'Chemical biology 2026' to discuss topics ranging from tool development to biological applications and from computational protein design to new drug modalities. ⚗️🧬 #EMBOChemBio 📅 8 – 11 Sep 📩 Submit abstract by 2 Jun: s.embl.org/chb26-01-bl

Bacterial networks #BacNet26 in September 2026 will be chaired by @lalouxlab.bsky.social and co-chaired by @s-lab.bsky.social with @coralietesseur.bsky.social Sneak peak on invited speakers and preliminary program: meetings.embo.org/event/26-bac...