Dr. Gloria Fackelmann

TODAY at #EESMicrobiome

Our scientific organisers opened ‘The human microbiome’ symposium by giving us a brief update on their most recent work 🦠 #EESMicrobiome

🔹Mani Arumugam, University of Copenhagen
🔹Ami Bhatt, Stanford University School of Medicine
🔹Peer Bork, EMBL Heidelberg
🔹Nicola Segata, University of Trento

The human microbiome

NEXT WEEK we are at #EESMicrobiome in Heidelberg @events.embl.org

Full program: www.embl.org/about/info/c...

On Tuesday, 16 Sept.
see you at Session 1
from 15:30
✨Liviana Ricci will give a talk "Microbial strain transmission between infants in nurseries drives gut microbiome development"

1/3

EMBL event program

On Wednesday, 17 Sept.
from 16h
don't miss Flash talk (ft) session 1
and Poster (p) session 1

and meet our lab members:
✨ @fackelmeister.bsky.social
✨ @vheidrich.bsky.social

2/3

Huge congrats to @seandreu.bsky.social and the whole team! 🥳 So glad to have been a part of this exciting work that focused on the links between gut #microbial #genetic variation at the #strain level and a whole slew of host #phenotypes and geography. Read more @cellpress.bsky.social!
#metagenomics

In this study just published at npj Biofilms and Microbiomes, we collected dental swab samples from dogs to shed light on the hardly studied dog dental plaque microbiome (1/7)

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals - Nature Microbiology Using 21,561 individuals, the authors present a cross-sectional study of how gut microbiome signatures are associated with dietary intake patterns and with host health outcomes.

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals

"How humans can shape their own gut microbiomes, and by extension their health, directly through simple dietary choices. …"

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

🌟New Year, New Resolutions!🌟

🌱As we kick off the year, many people take part in challenges like Veganuary, aiming to try out a plant-based diet.

📄Let’s dive into how different diets shape our gut health and the diversity of the microbiome based on a recent paper published by @cibiocm.bsky.social

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals - Nature Microbiology Using 21,561 individuals, the authors present a cross-sectional study of how gut microbiome signatures are associated with dietary intake patterns and with host health outcomes.

#Diets affect the gut #microbiome, e.g. red #meat is a driver of #omnivore microbiomes linked to poor cardiometabolic #health, inflammatory bowel #disease, colorectal #cancer & low short-chain fatty acids; #vegan ones are linked to favorable markers: doi.org/10.1038/s415... #plant-based #nutrition

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals - Nature Microbiology Using 21,561 individuals, the authors present a cross-sectional study of how gut microbiome signatures are associated with dietary intake patterns and with host health outcomes.

Du bist, was Du isst!

Eine aktuelle Studie unterstreicht den Einfluss der Ernährung auf das Mikrobiom und unsere Gesundheit.

Das Thema Ernährung (und viele andere präventive Maßnahmen) gehört noch viel stärker auf die gesundheitspolitische Agenden!

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

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals - Nature Microbiology Using 21,561 individuals, the authors present a cross-sectional study of how gut microbiome signatures are associated with dietary intake patterns and with host health outcomes.

Curious how omnivore, vegetarian, and vegan diets shape the gut microbiome?

@cibiocm.bsky.social @fackelmeister.bsky.social meta-analyzed 21,561 individuals and mapped diet-specific microbiome signatures linked to health. Plant-based diets show promising cardiometabolic benefits!

Starting the new year with a new paper out, led by @fackelmeister.bsky.social, check it out 👇

Thank you so much!

This is figure 5, which shows the contribution of food microbes to the gut microbiome across diet patterns.

A study in Nature Microbiology suggests that consuming more healthy plant-based foods could increase the proportion of gut microbes that favour human health. The findings are based on an analysis of more than 21,000 vegans, vegetarians, and omnivores. https://go.nature.com/40kHGqN 🧪

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals - Nature Microbiology Using 21,561 individuals, the authors present a cross-sectional study of how gut microbiome signatures are associated with dietary intake patterns and with host health outcomes.

#midweekmicro 🔬

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals

@naturemicrobiol.bsky.social #microsky
@cibiocm.bsky.social

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

Thank you for inviting us to write this Research Briefing! It was a lot of fun and a welcome change to write in what we hope is more widely accessible format! I always enjoy reading the "behind the paper" sections because it sheds light on the authors' insight that one doesn't usually have.

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals - Nature Microbiology Using 21,561 individuals, the authors present a cross-sectional study of how gut microbiome signatures are associated with dietary intake patterns and with host health outcomes.

OUT NOW - Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals

@cibiocm.bsky.social @fackelmeister.bsky.social

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

Thank you! Subgroups are not something we looked into, but we did consider hPDI (healthy plant-based diet index). This correlates with the same microbes regardless of diet pattern so in theory, omn eating more veg could have similar microbes as vegans. In practice though, omn have the lowest hPDI.

This work wouldn’t have been possible without collaboration! 💪 Kudos and thanks to the team at CIBIO and ZOE (most aren't on bluesky, so not tagged here) @cibiocm.bsky.social @fasnicar.bsky.social
🥳👏 10/10

Summary: The inclusion/exclusion of major food groups leaves its mark on the gut #microbiome via potential selection & food-to-gut acquisition esp from #dairy but also from fruit/veg, highlighting the role of agricultural practices in westernized gut microbiomes. 9/10

Interestingly though, the most prevalent food microbes in vegans are soil microbes sometimes used in agriculture as N-fixing plant-growth promoters🌱 8/10

Using the database of food-specific microbes #cFMD, we found that the greatest number of microbes may be derived from dairy, then fruits/veg and finally meat. Since vegans don’t eat dairy, they harbored the fewest food microbes. 7/10

🍎🥑🥕Diversity of plant-based foods in one’s #diet can play a role in shaping the gut #microbiome, regardless of diet pattern. However, in practice, omnivores consume a significantly less plant-diverse diet than #vegans or #vegetarians. 6/10

By correlating gut microbes with various host #cardiometabolic markers, we found vegan signature gut #microbes to be most favorable in terms of cardiometabolic #health, followed by vegetarians, trailed by omnivores. 5/10

white liquid is poured into a glass bowl on a blue surface ALT: white liquid is poured into a glass bowl on a blue surface

#Dairy microbes distinguish vegan from vegetarian gut #microbiomes, esp Streptococcus thermophilus, a common dairy starter. 4/10

Omnivore signature microbes are related to meat digestion🥩 & inflammatory processes (eg Ruminococcus torques, Bilophila wadsworthia & Alistipes putredinis). Vegan microbes are often fiber-degraders & short-chain fatty acid producers (eg Butyricicoccus, Roseburia hominis). 3/10

Using gut #microbiome samples from 21k+ people from the UK & US from the ZOE PREDICT cohorts (among the largest with detailed dietary info) plus Italy, we were able to accurately distinguish between omnivores, vegetarians & vegans via machine learning #ML (mean AUC=0.85). 2/10

Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals - Nature Microbiology Using 21,561 individuals, the authors present a cross-sectional study of how gut microbiome signatures are associated with dietary intake patterns and with host health outcomes.

🧵 How does being a #vegan, #vegetarian or omnivore impact your gut #microbiome? 🥦 Find out in our new paper on gut microbiome signatures of vegan, vegetarian & omnivore diets & associated health outcomes across 21,561 individuals in @naturemicrobiol.bsky.social!🎉 1/10

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

The gut microbiome signature from different diets in 20,000 individuals. Red meat intake correlated with reduced cardiometabolic health; the opposite for plant-based foods or in omnivores with enriched plant-based intake
www.nature.com/articles/s41...

The 2025 EMBL Annual Poster, listing all of the courses and conferences taking place in 2025 at EMBL

Hi Bluesky community! 👋

Are you looking forward to 2025 as much as we are? 👀

We just updated our 2025 Annual Poster to include even more events for you to join, so go and have a look!

➡️ s.embl.org/poster-bl

#EMBLEvents #molecularbiology #lifesciencetraining