Simon Yersin

Exciting time at #Probiota in Dublin presenting in front of the probiotic industry leaders about the small intestinal microbiota!
Our review is always available: doi.org/10.1016/j.ti...

Great three days at @keystonesymposia.bsky.social in Banff, discussing everything #microbiome and metabolites with great colleagues and new friends! 🦠⛷️
Thank you to everyone who came to discuss during the poster session!

Evaluating long-term stool preservation methods for maximizing the recovery of viable human fecal microbiota The gut microbiome plays a fundamental role in human health, prompting efforts to catalog and preserve its diversity across human populations. While DNA sequencing dominates microbiome research, cu...

💩 How can we best conserve stool samples to recover viable bacteria after long-term storage? A new study @vonaeschlab.bsky.social offers practical answers to help make #microbiome #research more robust, reproducible, and globally accessible.
🔗 www.tandfonline.com/doi/full/10....

Strain-level translocation and enrichment mechanisms of oral bacteria in the lower gastrointestinal tract of stunted children https://www.biorxiv.org/content/10.1101/2025.11.11.687814v1

Thank you Copenhagen Gut Microbiome Hub for giving me the opportunity to present this project today!

Strain-level translocation and enrichment mechanisms of oral bacteria in the lower gastrointestinal tract of stunted children Emerging evidence suggests that ectopic colonization of oral bacteria in the lower digestive tract may exacerbate gastrointestinal disorders. Nevertheless, it remains unclear whether bacteria of oral ...

📢 New preprint: Strain-level translocation and enrichment mechanisms of oral bacteria in the lower gastrointestinal tract of stunted children
doi.org/10.1101/2025...

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...

🐝🦠 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

In the review, we discussed strain-sharing and spreading of antimicrobial resistance (AMR) genes within and across domains as well as overall microbiome diversity and resilience to climate change and how this is influenced by the One Health concept.

One Health, One Microbiome - Microbiome One Health is a concept and framework for addressing the interconnected nature of humans, animals and their environments to improve the health and wellbeing of all three, along with added social and f...

🔈 Our new review on the role of the #microbiome in #OneHealth is out!

@vonaeschlab.bsky.social

microbiomejournal.biomedcentral.com/articles/10....

Poster #278 is up at #EESMicrobiome !
Come have a look to chat about within-host transmission and everything #microbiome related! 🦠

@events.embl.org

Race by other names: critiquing population categories in microbiome research | mSystems Behind the façade of scientific objectivity, race continues to haunt modern science. Contemporary biomedical research often employs categories of human difference that have recently come under critici...

Race by other names: critiquing population categories in microbiome research

#mSystems MiniReview by Marta Scaglioni

journals.asm.org/doi/10.1128/...

Milk-derived casein glycomacropeptide improves colonic mucus function under Western-style diet feeding in a sialylation-dependent manner The colonic mucus layer is the primary interface between the host and the gut microbiota. It serves both as an ecological niche for bacteria and a bar…

Summer strike #2: Our collaboration work with Arla Foods Ingredients has just been published in Food Research International:

www.sciencedirect.com/science/arti...

#microsky #gastrosky #microbiomesky #guthealth

Metagenomic estimation of absolute bacterial biomass in the mammalian gut through host-derived read normalization | mSystems In this study, we asked whether normalization by host reads alone was sufficient to estimate absolute bacterial biomass directly from stool metagenomic data, without the need for synthetic spike-ins, ...

You can get an accurate estimate of total bacterial biomass from stool metagenomes by simply normalizing by host read count, without needing any additional measurements.

Excellent work by UW Master's student Gechlang Tang in @asm.org #mSystems Journal.

journals.asm.org/doi/10.1128/...
🧵

📢 New publication!

Excellent work from my colleagues who showed the high prevalence of #AMR in children from rural communities in Ethiopia, even with limited access to antibiotics. #OneHealth

aricjournal.biomedcentral.com/articles/10....

Excited to join the #bluesky community!

I'm a PhD student at the University of Lausanne, Switzerland, exploring the human digestive tract microbiota and its link to child stunting.

Interested in all things human microbiome, nutrition and bioinformatic! 🦠