Muriel Derrien
@murielderrien.bsky.social
Scientist Human Gut microbiome @MIB_WUR 🇳🇱 - @DanoneResearch 🇨🇵 - now @RaesLab 🇧🇪 (@VIB_microbes @KU_Leuven). Opinions are my own.
Reposted by Muriel Derrien
We're at 735 registrants and counting! 🎉🦠
If you haven't registered yet, don't miss out on this exciting (free) symposium on gut microbial metabolites and their impacts on host health.
Please share with your networks. 🔗👇
isbscience.org/events/2025-...
If you haven't registered yet, don't miss out on this exciting (free) symposium on gut microbial metabolites and their impacts on host health.
Please share with your networks. 🔗👇
isbscience.org/events/2025-...
November 26, 2025 at 5:19 PM
We're at 735 registrants and counting! 🎉🦠
If you haven't registered yet, don't miss out on this exciting (free) symposium on gut microbial metabolites and their impacts on host health.
Please share with your networks. 🔗👇
isbscience.org/events/2025-...
If you haven't registered yet, don't miss out on this exciting (free) symposium on gut microbial metabolites and their impacts on host health.
Please share with your networks. 🔗👇
isbscience.org/events/2025-...
Reposted by Muriel Derrien
Join us in December for #MVIF 44!
We will discuss diverse #microbiome topics:
human urinary, gut, oral and nasal microbiomes,
extreme environments, and
a new sequence alignment tool.
We will discuss diverse #microbiome topics:
human urinary, gut, oral and nasal microbiomes,
extreme environments, and
a new sequence alignment tool.
It's Monday!
...and a new #MVIF program is out! 🤩
Free registration: cassyni.com/s/mvif-44
⭐️ Highlights:
🇺🇸 Vanessa Hale
🇰🇷 Jun Hyung Cha
⭐️ Keynote:
🇺🇸 Katherine Lemon @kathlemon.bsky.social
⭐️ Talks:
🇺🇸 Meenakshi Chakraborty
🇨🇳 Wei Shen @shenwei356.bsky.social
🇺🇸 Johanna Gutleben
...and a new #MVIF program is out! 🤩
Free registration: cassyni.com/s/mvif-44
⭐️ Highlights:
🇺🇸 Vanessa Hale
🇰🇷 Jun Hyung Cha
⭐️ Keynote:
🇺🇸 Katherine Lemon @kathlemon.bsky.social
⭐️ Talks:
🇺🇸 Meenakshi Chakraborty
🇨🇳 Wei Shen @shenwei356.bsky.social
🇺🇸 Johanna Gutleben
November 24, 2025 at 10:34 AM
Join us in December for #MVIF 44!
We will discuss diverse #microbiome topics:
human urinary, gut, oral and nasal microbiomes,
extreme environments, and
a new sequence alignment tool.
We will discuss diverse #microbiome topics:
human urinary, gut, oral and nasal microbiomes,
extreme environments, and
a new sequence alignment tool.
Reposted by Muriel Derrien
#Review
Bacteria can “remember” past environments through genetic & biochemical imprints helping them adapt and thrive! 🦠🧠
#MicroSky
www.nature.com/articles/s41...
Bacteria can “remember” past environments through genetic & biochemical imprints helping them adapt and thrive! 🦠🧠
#MicroSky
www.nature.com/articles/s41...
Exploring the concept of bacterial memory - Nature Microbiology
This Perspective discusses the concept, mechanisms and evidence for memory in bacteria at individual and community levels.
www.nature.com
November 18, 2025 at 8:51 AM
#Review
Bacteria can “remember” past environments through genetic & biochemical imprints helping them adapt and thrive! 🦠🧠
#MicroSky
www.nature.com/articles/s41...
Bacteria can “remember” past environments through genetic & biochemical imprints helping them adapt and thrive! 🦠🧠
#MicroSky
www.nature.com/articles/s41...
Reposted by Muriel Derrien
Now online! Nutrient competition predicts gut microbiome restructuring under drug perturbations
Nutrient competition predicts gut microbiome restructuring under drug perturbations
Systematic profiling of 707 drugs on their impact on stool-derived microbial communities shows that nutrient competition explains and predicts species shifts under drug treatment and that post-drug recovery is driven by ecological interactions like extinction and strain swapping.
dlvr.it
November 17, 2025 at 7:51 PM
Now online! Nutrient competition predicts gut microbiome restructuring under drug perturbations
Reposted by Muriel Derrien
Thrilled to finally share the latest chapter of our in situ microbiome editing work: “Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases”, now out in @science.org 👉 www.science.org/doi/10.1126/...
Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases
Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...
www.science.org
November 18, 2025 at 1:37 AM
Thrilled to finally share the latest chapter of our in situ microbiome editing work: “Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases”, now out in @science.org 👉 www.science.org/doi/10.1126/...
Reposted by Muriel Derrien
Characterization of the tumor microbiome of brain metastases and glioblastoma reveals tumor-type-specific and location-specific microbial signatures www.nature.com/articles/s43...
Characterization of the tumor microbiome of brain metastases and glioblastoma reveals tumor-type-specific and location-specific microbial signatures - Nature Cancer
Using multiple visualization and profiling methods, Gigi et al. characterize the microbiome diversity of 322 brain tumors including brain metastases and glioblastomas.
www.nature.com
November 16, 2025 at 9:21 AM
Characterization of the tumor microbiome of brain metastases and glioblastoma reveals tumor-type-specific and location-specific microbial signatures www.nature.com/articles/s43...
Reposted by Muriel Derrien
Ketogenic diet inhibits glioma progression by promoting gut microbiota-derived butyrate production
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
Ketogenic diet inhibits glioma progression by promoting gut microbiota-derived butyrate production
The ketogenic diet (KD) is a potential therapeutic strategy for glioma; however, the underlying mechanisms remain unclear. Herein, we first identify t…
www.sciencedirect.com
September 29, 2025 at 5:00 AM
Ketogenic diet inhibits glioma progression by promoting gut microbiota-derived butyrate production
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
Reposted by Muriel Derrien
Very excited to share our latest work in Science on metagenomic editing (MetaEdit) of the gut microbiome in vivo & directly modifying unculturable immune-modulatory SFB bug in the small intestine. 🦠🧬🛠️
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases
Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...
www.science.org
November 13, 2025 at 8:53 PM
Very excited to share our latest work in Science on metagenomic editing (MetaEdit) of the gut microbiome in vivo & directly modifying unculturable immune-modulatory SFB bug in the small intestine. 🦠🧬🛠️
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Muriel Derrien
Can bacteria remember? Read our Perspective published today www.nature.com/articles/s41...
Exploring the concept of bacterial memory - Nature Microbiology
This Perspective discusses the concept, mechanisms and evidence for memory in bacteria at individual and community levels.
www.nature.com
November 14, 2025 at 1:53 PM
Can bacteria remember? Read our Perspective published today www.nature.com/articles/s41...
Reposted by Muriel Derrien
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 ⭐⭐
Fast and robust estimate of bacterial genus novelty using the percentage of conserved proteins with unique matches (POCPu)
Accurate taxonomic assignment of bacterial genomes is essential for identifying novel taxa and for stable classification to enable robust comparison between studies. Bacterial genus delineation relies...
peerj.com
November 14, 2025 at 2:08 PM
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 ⭐⭐
Reposted by Muriel Derrien
1/9 Metagenomics lets us read microbiomes in nature without cultivation, but writing (editing) them in their native context is still a major challenge.
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases
Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...
science.org
November 14, 2025 at 2:25 PM
1/9 Metagenomics lets us read microbiomes in nature without cultivation, but writing (editing) them in their native context is still a major challenge.
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Reposted by Muriel Derrien
Super excited that the bulk of my PhD work is now preprinted! Here we used whole-community competition, or coalescence, experiments to quantify selection acting on genetically diverged strains within larger communities. (1/n)
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
www.biorxiv.org
November 11, 2025 at 5:15 PM
Super excited that the bulk of my PhD work is now preprinted! Here we used whole-community competition, or coalescence, experiments to quantify selection acting on genetically diverged strains within larger communities. (1/n)
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Muriel Derrien
This week we are happy to welcome you at #MVIF 43!
We will discuss the new bioinformatics approaches, latest findings in drug development, cancer studies and more!
There's still time to register: cassyni.com/s/mvif-43
We will discuss the new bioinformatics approaches, latest findings in drug development, cancer studies and more!
There's still time to register: cassyni.com/s/mvif-43
🆕 #MVIF 43 program is out!
Free registration: cassyni.com/s/mvif-43
⭐️ Highlights:
🇵🇰 Muhammad Faheem Raziq
🇺🇸 Fuqing Wu
⭐️ Keynote:
🇮🇳 Deepa Agashe @deepaagashe.bsky.social
⭐️ Talks:
🇺🇸 Lukas Bethlehem
🇵🇱 Kinga Zielinska
🇸🇪 Eran Elhaik
Free registration: cassyni.com/s/mvif-43
⭐️ Highlights:
🇵🇰 Muhammad Faheem Raziq
🇺🇸 Fuqing Wu
⭐️ Keynote:
🇮🇳 Deepa Agashe @deepaagashe.bsky.social
⭐️ Talks:
🇺🇸 Lukas Bethlehem
🇵🇱 Kinga Zielinska
🇸🇪 Eran Elhaik
November 10, 2025 at 10:37 AM
This week we are happy to welcome you at #MVIF 43!
We will discuss the new bioinformatics approaches, latest findings in drug development, cancer studies and more!
There's still time to register: cassyni.com/s/mvif-43
We will discuss the new bioinformatics approaches, latest findings in drug development, cancer studies and more!
There's still time to register: cassyni.com/s/mvif-43
Reposted by Muriel Derrien
Time-series RNA metabarcoding of the active Populus tremuloides root microbiome reveals hidden temporal dynamics and dormant core members
#mSystems by @jakenash12.bsky.social et al
journals.asm.org/doi/10.1128/...
#mSystems by @jakenash12.bsky.social et al
journals.asm.org/doi/10.1128/...
November 9, 2025 at 9:44 AM
Time-series RNA metabarcoding of the active Populus tremuloides root microbiome reveals hidden temporal dynamics and dormant core members
#mSystems by @jakenash12.bsky.social et al
journals.asm.org/doi/10.1128/...
#mSystems by @jakenash12.bsky.social et al
journals.asm.org/doi/10.1128/...
Reposted by Muriel Derrien
Strain displacement in microbiomes via ecological competition
Cool @natmicrobiol.nature.com publication by @erikbakkeren.bsky.social
@vit-pi.bsky.social @meganleeny.bsky.social @microscape.bsky.social & Kevin Foster
www.nature.com/articles/s41...
Cool @natmicrobiol.nature.com publication by @erikbakkeren.bsky.social
@vit-pi.bsky.social @meganleeny.bsky.social @microscape.bsky.social & Kevin Foster
www.nature.com/articles/s41...
Strain displacement in microbiomes via ecological competition - Nature Microbiology
Mathematical modelling and experimental tests reveal principles that govern displacement of a resident strain by an invader in microbial communities.
www.nature.com
November 7, 2025 at 2:19 PM
Strain displacement in microbiomes via ecological competition
Cool @natmicrobiol.nature.com publication by @erikbakkeren.bsky.social
@vit-pi.bsky.social @meganleeny.bsky.social @microscape.bsky.social & Kevin Foster
www.nature.com/articles/s41...
Cool @natmicrobiol.nature.com publication by @erikbakkeren.bsky.social
@vit-pi.bsky.social @meganleeny.bsky.social @microscape.bsky.social & Kevin Foster
www.nature.com/articles/s41...
Reposted by Muriel Derrien
PlasticEnz: An integrated database and screening tool combining homology and machine learning to identify plastic-degrading enzymes in meta-omics datasets www.biorxiv.org/content/10.1... #jcampubs
November 1, 2025 at 6:14 AM
PlasticEnz: An integrated database and screening tool combining homology and machine learning to identify plastic-degrading enzymes in meta-omics datasets www.biorxiv.org/content/10.1... #jcampubs
Reposted by Muriel Derrien
Great to see this finally published!
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
Abstract. Metagenomic sequencing enables the in-depth study of microbes and their functions in humans, animals, and the environment. While sequencing data
academic.oup.com
October 31, 2025 at 3:16 PM
Great to see this finally published!
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Metalog: curated and harmonised contextual data for global metagenomics samples
now out in @narjournal.bsky.social
academic.oup.com/nar/advance-...
Reposted by Muriel Derrien
TODAY 🎙️
There's still time to register:
emea.illumina.com/events/webin...
Note: If you cannot join live, no problem, just register now to receive access to the on-demand version later.
There's still time to register:
emea.illumina.com/events/webin...
Note: If you cannot join live, no problem, just register now to receive access to the on-demand version later.
SAVE THE DATE: 27 October, 2025
and join speakers from both illumina and #MVIF!
Registration for the webinar is free: emea.illumina.com/events/webin...
and join speakers from both illumina and #MVIF!
Registration for the webinar is free: emea.illumina.com/events/webin...
October 27, 2025 at 8:13 AM
TODAY 🎙️
There's still time to register:
emea.illumina.com/events/webin...
Note: If you cannot join live, no problem, just register now to receive access to the on-demand version later.
There's still time to register:
emea.illumina.com/events/webin...
Note: If you cannot join live, no problem, just register now to receive access to the on-demand version later.
Reposted by Muriel Derrien
Host transcriptional responses to gut microbiome variation arising from urbanism https://www.biorxiv.org/content/10.1101/2025.10.26.683539v1
October 27, 2025 at 3:17 AM
Host transcriptional responses to gut microbiome variation arising from urbanism https://www.biorxiv.org/content/10.1101/2025.10.26.683539v1
Reposted by Muriel Derrien
Looks interesting 👀: Distinguishing diet- and microbe-derived metabolites in the human gut microbiomejournal.biomedcentral.com/articles/10....
Distinguishing diet- and microbe-derived metabolites in the human gut - Microbiome
Background Human gut microbes metabolize food and host secretions, consuming and producing small molecules that are important to health and homeostasis. Here, we present an atlas of diet- and microbio...
microbiomejournal.biomedcentral.com
October 18, 2025 at 7:07 PM
Looks interesting 👀: Distinguishing diet- and microbe-derived metabolites in the human gut microbiomejournal.biomedcentral.com/articles/10....
Reposted by Muriel Derrien
Very excited to share the latest work from our lab, which was published today in Nature!
nature.com/articles/s41...
PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
nature.com/articles/s41...
PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
Isolation, engineering and ecology of temperate phages from the human gut - Nature
Human host-associated cellular products may act as induction agents for bacteriophages.
nature.com
October 15, 2025 at 9:41 PM
Very excited to share the latest work from our lab, which was published today in Nature!
nature.com/articles/s41...
PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
nature.com/articles/s41...
PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
Reposted by Muriel Derrien
NEW #MVIF program is out! 🤩
Free registration: cassyni.com/s/mvif-42
⭐️ Highlights:
🇦🇺 @gbouras13.bsky.social
🇺🇸 Danica Schmidtke
⭐️ Keynote:
🇺🇸 Peter Turnbaugh
⭐️ Talks:
🇸🇬 Minghao Chia
🇺🇸 @arzamasovalex.bsky.social
🇳🇿 Brooke Wilson
Free registration: cassyni.com/s/mvif-42
⭐️ Highlights:
🇦🇺 @gbouras13.bsky.social
🇺🇸 Danica Schmidtke
⭐️ Keynote:
🇺🇸 Peter Turnbaugh
⭐️ Talks:
🇸🇬 Minghao Chia
🇺🇸 @arzamasovalex.bsky.social
🇳🇿 Brooke Wilson
October 15, 2025 at 9:43 AM
Reposted by Muriel Derrien
Strainify: Strain-Level Microbiome Profiling for Low-Coverage Short-Read Metagenomic Datasets https://www.biorxiv.org/content/10.1101/2025.10.10.681738v1
October 13, 2025 at 11:47 PM
Strainify: Strain-Level Microbiome Profiling for Low-Coverage Short-Read Metagenomic Datasets https://www.biorxiv.org/content/10.1101/2025.10.10.681738v1
Reposted by Muriel Derrien
Excited to share our preprint led by Carlos Voogdt et al
We developed new genetic tools & genome-wide libraries for species of the Bacteroidales order; constructed saturated barcoded transposon libraries in key representatives of three genera.
www.biorxiv.org/content/10.1...
We developed new genetic tools & genome-wide libraries for species of the Bacteroidales order; constructed saturated barcoded transposon libraries in key representatives of three genera.
www.biorxiv.org/content/10.1...
October 13, 2025 at 7:48 AM
Excited to share our preprint led by Carlos Voogdt et al
We developed new genetic tools & genome-wide libraries for species of the Bacteroidales order; constructed saturated barcoded transposon libraries in key representatives of three genera.
www.biorxiv.org/content/10.1...
We developed new genetic tools & genome-wide libraries for species of the Bacteroidales order; constructed saturated barcoded transposon libraries in key representatives of three genera.
www.biorxiv.org/content/10.1...
Reposted by Muriel Derrien
A toolkit for transposon libraries and functional genomics in intestinal Bacteroidales https://www.biorxiv.org/content/10.1101/2025.10.10.681549v1
October 11, 2025 at 3:16 AM
A toolkit for transposon libraries and functional genomics in intestinal Bacteroidales https://www.biorxiv.org/content/10.1101/2025.10.10.681549v1