Michael Zimmermann Lab
@zimmermannlab.bsky.social
We use high-throughput MS, bacterial genetics, gnotobiology & computational models to study metabolic interactions in microbial ecosystems
@EMBL
Homepage: https://www.embl.org/groups/zimmermann/
@EMBL
Homepage: https://www.embl.org/groups/zimmermann/
Pinned
Zimmermann Lab is now on BlueSky!
We are #microbiome #research lab @embl.org using high-throughput MS, bacterial genetics, gnotobiology & computational models to study metabolic interactions in #microbial ecosystems 🦠 🧫
Follow to learn more about our work, publications & job openings! #science
We are #microbiome #research lab @embl.org using high-throughput MS, bacterial genetics, gnotobiology & computational models to study metabolic interactions in #microbial ecosystems 🦠 🧫
Follow to learn more about our work, publications & job openings! #science
Reposted by Michael Zimmermann Lab
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
tinyurl.com/funsignaling
February 11, 2026 at 1:57 PM
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
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
@embl.org
February 10, 2026 at 7:45 AM
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
@embl.org
🦠 We'd like to know what *you* find as the most important info in microbial-based assays.
Our goal is to establish **Minimum Information about Xenobiotics-Microbiome Biotransformation (MIX-MB)** to improve data exchange, exploration, reproducibility, and integration across diverse microbial niches.
Our goal is to establish **Minimum Information about Xenobiotics-Microbiome Biotransformation (MIX-MB)** to improve data exchange, exploration, reproducibility, and integration across diverse microbial niches.
February 9, 2026 at 1:14 PM
🦠 We'd like to know what *you* find as the most important info in microbial-based assays.
Our goal is to establish **Minimum Information about Xenobiotics-Microbiome Biotransformation (MIX-MB)** to improve data exchange, exploration, reproducibility, and integration across diverse microbial niches.
Our goal is to establish **Minimum Information about Xenobiotics-Microbiome Biotransformation (MIX-MB)** to improve data exchange, exploration, reproducibility, and integration across diverse microbial niches.
Your feedback will ensure these standards reflect real-world research needs.
📢 Please share with colleagues and collaborators in the field!
#microbiome #metabolomics #xenobiotics #datastandards #openscience #NFDI4Microbiota #NFDI #EMBL
Supported by @nfdi4microbiota.bsky.social @embl.org 🤝
📢 Please share with colleagues and collaborators in the field!
#microbiome #metabolomics #xenobiotics #datastandards #openscience #NFDI4Microbiota #NFDI #EMBL
Supported by @nfdi4microbiota.bsky.social @embl.org 🤝
February 9, 2026 at 1:13 PM
Your feedback will ensure these standards reflect real-world research needs.
📢 Please share with colleagues and collaborators in the field!
#microbiome #metabolomics #xenobiotics #datastandards #openscience #NFDI4Microbiota #NFDI #EMBL
Supported by @nfdi4microbiota.bsky.social @embl.org 🤝
📢 Please share with colleagues and collaborators in the field!
#microbiome #metabolomics #xenobiotics #datastandards #openscience #NFDI4Microbiota #NFDI #EMBL
Supported by @nfdi4microbiota.bsky.social @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...
⬇️ ⬇️ ⬇️
🧪 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
February 9, 2026 at 1:05 PM
🚨 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...
⬇️ ⬇️ ⬇️
🧪 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...
⬇️ ⬇️ ⬇️
Reposted by Michael Zimmermann Lab
⭐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
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.
www.nature.com
February 2, 2026 at 2:30 PM
⭐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
https://www.nature.com/articles/d41591-026-00006-6
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
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
February 2, 2026 at 3:32 PM
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
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 🔬🦠
In her postdoctoral work, she will focus on the development and application of NMR-metabolomics in microbiome research 🔬🦠
January 26, 2026 at 10:06 AM
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 🔬🦠
In her postdoctoral work, she will focus on the development and application of NMR-metabolomics in microbiome research 🔬🦠
Reposted by Michael Zimmermann Lab
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-...
We extend our deepest condolences to his family, friends, and colleagues.
www.embl.org/news/people-...
January 22, 2026 at 7:40 AM
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-...
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...
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
December 16, 2025 at 10:56 AM
📍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...
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...
@Vanessa Pahl and @Richard Jacoby presented their work on marine chemical pollution
December 3, 2025 at 8:22 AM
@Vanessa Pahl and @Richard Jacoby presented their work on marine chemical pollution
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
December 3, 2025 at 8:21 AM
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
Reposted by Michael Zimmermann Lab
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...
The lecture will explore how traces of Neanderthal DNA might shape human biology and health today.
www.embl.org/news/embl-an...
December 1, 2025 at 8:22 AM
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...
The lecture will explore how traces of Neanderthal DNA might shape human biology and health today.
www.embl.org/news/embl-an...
Reposted by Michael Zimmermann Lab
It’s not only medications—environmental chemicals can also inadvertently harm our gut microbes. Excited to have contributed a bit to this important study!
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...
Turns out many such chemicals, although labelled as 'fungicides' or similar, can inadvertently inhibit friendly gut bacteria.
www.nature.com/articles/s41...
November 26, 2025 at 1:02 PM
It’s not only medications—environmental chemicals can also inadvertently harm our gut microbes. Excited to have contributed a bit to this important study!
Reposted by Michael Zimmermann Lab
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...
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
November 26, 2025 at 2:08 PM
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...
Nicola Segata will talk about the microbiome in nutrition and cardiometabolic health.
Full program here: gsh.idloom.events/microbiome/p...
Reposted by Michael Zimmermann Lab
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
📅 8 – 11 Sep
📩 Submit abstract by 2 Jun: s.embl.org/chb26-01-bl
November 20, 2025 at 9:19 AM
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
📅 8 – 11 Sep
📩 Submit abstract by 2 Jun: s.embl.org/chb26-01-bl
Reposted by Michael Zimmermann Lab
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...
Sneak peak on invited speakers and preliminary program:
meetings.embo.org/event/26-bac...
November 20, 2025 at 8:47 AM
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...
Sneak peak on invited speakers and preliminary program:
meetings.embo.org/event/26-bac...
Reposted by Michael Zimmermann Lab
You only have one more week to submit your abstract for 'Collectivity in living systems: emergence, function, and evolution' 👉 s.embl.org/ees26-01-bl
Don't miss #EESCollectivity which will explore how collective behaviours arise from fundamental principles across biological systems🦠🐒🧬
Don't miss #EESCollectivity which will explore how collective behaviours arise from fundamental principles across biological systems🦠🐒🧬
November 11, 2025 at 1:34 PM
You only have one more week to submit your abstract for 'Collectivity in living systems: emergence, function, and evolution' 👉 s.embl.org/ees26-01-bl
Don't miss #EESCollectivity which will explore how collective behaviours arise from fundamental principles across biological systems🦠🐒🧬
Don't miss #EESCollectivity which will explore how collective behaviours arise from fundamental principles across biological systems🦠🐒🧬
Reposted by Michael Zimmermann Lab
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 ⬇️
November 5, 2025 at 10:15 AM
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 ⬇️
Reposted by Michael Zimmermann Lab
🐝🦠 New paper: rdcu.be/eOf7A
Phages may drive microbial diversity, yet we often don’t even know how phages & bacteria correlate in nature. Our new study tackles this in the honeybee gut, thanks to the great work of PhD student @malickndiaye.bsky.social at @dmf-unil.bsky.social @fbm-unil.bsky.social
Phages may drive microbial diversity, yet we often don’t even know how phages & bacteria correlate in nature. Our new study tackles this in the honeybee gut, thanks to the great work of PhD student @malickndiaye.bsky.social at @dmf-unil.bsky.social @fbm-unil.bsky.social
Phage diversity mirrors bacterial strain diversity in the honey bee gut microbiota - Nature Communications
Authors analyse paired viral and bacterial shotgun metagenomics data from individual honeybee guts, revealing modular, nested phage–bacteria networks, with viral diversity mirroring bacterial strain c...
www.nature.com
November 4, 2025 at 8:36 PM
🐝🦠 New paper: rdcu.be/eOf7A
Phages may drive microbial diversity, yet we often don’t even know how phages & bacteria correlate in nature. Our new study tackles this in the honeybee gut, thanks to the great work of PhD student @malickndiaye.bsky.social at @dmf-unil.bsky.social @fbm-unil.bsky.social
Phages may drive microbial diversity, yet we often don’t even know how phages & bacteria correlate in nature. Our new study tackles this in the honeybee gut, thanks to the great work of PhD student @malickndiaye.bsky.social at @dmf-unil.bsky.social @fbm-unil.bsky.social
Reposted by Michael Zimmermann Lab
Proud to announce a new preprint of our lb - deep dive into #immune #metabolomic mode of action of the #vaginalmicrobiome - thanks to Isala! Great collab with @zimmermannlab.bsky.social & almost entire PhD of @carolinedricot.bsky.social combined in one manuscript www.biorxiv.org/content/10.1...
Vitamin B2 Production by Vaginal Lactobacilli Promotes Symbiosis
The human vaginal microbiome, particularly with lactobacilli as the main inhabitants, plays a key role in maintaining women’s health. While lactic acid-mediated pathogen exclusion is well known, broad...
www.biorxiv.org
November 2, 2025 at 6:46 AM
Proud to announce a new preprint of our lb - deep dive into #immune #metabolomic mode of action of the #vaginalmicrobiome - thanks to Isala! Great collab with @zimmermannlab.bsky.social & almost entire PhD of @carolinedricot.bsky.social combined in one manuscript www.biorxiv.org/content/10.1...
We are very happy to share a new preprint 🎉
Congratulations to everyone involved!
@carolinedricot.bsky.social, @denisemselegato.bsky.social, @sarahlebeer.bsky.social and co.
www.biorxiv.org/content/10.1...
Congratulations to everyone involved!
@carolinedricot.bsky.social, @denisemselegato.bsky.social, @sarahlebeer.bsky.social and co.
www.biorxiv.org/content/10.1...
Vitamin B2 Production by Vaginal Lactobacilli Promotes Symbiosis
The human vaginal microbiome, particularly with lactobacilli as the main inhabitants, plays a key role in maintaining women's health. While lactic acid-mediated pathogen exclusion is well known, broad...
www.biorxiv.org
October 29, 2025 at 4:13 PM
We are very happy to share a new preprint 🎉
Congratulations to everyone involved!
@carolinedricot.bsky.social, @denisemselegato.bsky.social, @sarahlebeer.bsky.social and co.
www.biorxiv.org/content/10.1...
Congratulations to everyone involved!
@carolinedricot.bsky.social, @denisemselegato.bsky.social, @sarahlebeer.bsky.social and co.
www.biorxiv.org/content/10.1...
October 23, 2025 at 9:22 AM
Reposted by Michael Zimmermann Lab
After exploring Europe’s coastlines, EMBL’s TREC expedition is moving inland! 💧
The new Traversing Ecosystems phase focuses on freshwater habitats – studying how human activity and environmental change affect life at the molecular level.
www.embl.org/news/science...
The new Traversing Ecosystems phase focuses on freshwater habitats – studying how human activity and environmental change affect life at the molecular level.
www.embl.org/news/science...
October 23, 2025 at 9:02 AM
After exploring Europe’s coastlines, EMBL’s TREC expedition is moving inland! 💧
The new Traversing Ecosystems phase focuses on freshwater habitats – studying how human activity and environmental change affect life at the molecular level.
www.embl.org/news/science...
The new Traversing Ecosystems phase focuses on freshwater habitats – studying how human activity and environmental change affect life at the molecular level.
www.embl.org/news/science...
Reposted by Michael Zimmermann Lab
Looking for a new approach to studying or eliminating phages? Check out our study introducing anti-phage ASOs (antisense oligos) out in @Nature today. nature.com/articles/s4158…
September 10, 2025 at 3:40 PM
Looking for a new approach to studying or eliminating phages? Check out our study introducing anti-phage ASOs (antisense oligos) out in @Nature today. nature.com/articles/s4158…