Marc-Emmanuel Dumas
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marcedumas.bsky.social
Marc-Emmanuel Dumas
@marcedumas.bsky.social
860 followers 710 following 19 posts
Biochemist and engineer. Chair/Head of Systems Medicine @Imperial 🇬🇧 Research Director @CNRS🇫🇷 Adjunct Professor @McGill 🇨🇦 human #metabolome #microbiome #holobiont in #cardiometabolic diseases and #environmental ecosystems too #OneHealth
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Reposted by Marc-Emmanuel Dumas
jfcryan.bsky.social
Great to see our review on the role of microglia, the 'gardeners' of the brain, in modulating the gut-brain axis make the cover of this months @natrevimmunol.nature.com
natrevimmunol.nature.com Nature Reviews Immunology @natrevimmunol.nature.com · 15d
November issue now online www.nature.com/nri/volumes/...

Cover art inspired by a Perspective article by @lilykeane.bsky.social, Gerard Clarke & @jfcryan.bsky.social on the role of microglia, the 'gardeners' of the brain, in modulating the gut-brain axis
www.nature.com/articles/s41...
October 30, 2025 at 4:52 PM
Reposted by Marc-Emmanuel Dumas
abazajian.net
The journal Science covers the UC spyware saga. The UC administrators’ policy assurances are like saying one does not have to lock one’s car because it is illegal for someone to steal the car or its contents. #highereducation 🧪⚛️🔭 #academicsky www.science.org/content/arti...
University of California faculty push back against Big Brother cybersecurity mandate
School officials defend software as bulwark against ransomware, but professors fear potential surveillance of their devices
www.science.org
October 23, 2025 at 8:23 PM
Reposted by Marc-Emmanuel Dumas
natmetabolism.nature.com
#Throwback 🧪

COMMENT | A brief guide to statistical analysis of grouped data in preclinical research

@colbyvorland.bsky.social
L Golzarri-Arroyo
DB Allison
A brief guide to statistical analysis of grouped data in preclinical research - Nature Metabolism
Clustering and nesting (C&N) arise in many preclinical studies, such as when animals are group-housed or share litters, or in cell culture. Ignoring C&N undermines the validity of analyses. Here, we explain how C&N arise, as well as valid designs and analyses.
bit.ly
October 23, 2025 at 2:32 PM
Reposted by Marc-Emmanuel Dumas
hutlab.bsky.social
NEW publication from our lab: One of the first methodologies (FUGAsseM) for gene function prediction from microbial community multi-omics data!

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

🧵⬇️

1/8
Predicting functions of uncharacterized gene products from microbial communities - Nature Biotechnology
FUGAsseM predicts protein function in microbiomes using coexpression patterns from metatranscriptomes and diverse community-wide data.
www.nature.com
October 23, 2025 at 6:53 PM
Reposted by Marc-Emmanuel Dumas
evgenii-protasov.bsky.social
Trees also have a microbiome 🤓
#microbiology #microbiome
@nature.com
www.nature.com/articles/s41...
A diverse and distinct microbiome inside living trees - Nature
Microbiome analyses of living trees show that a single tree can host approximately one trillion bacteria, with microbial communities distinctly partitioned between heartwood and sapwood and with minim...
www.nature.com
August 12, 2025 at 1:05 PM
Reposted by Marc-Emmanuel Dumas
symbionticism.bsky.social
Microbiomes are the foundation of the biosphere. Hosts such as humans, bees, and plants have never been just hosts. They are complex units of biological organization upon which various forces act to shape composition, form, and function. www.science.org/doi/10.1126/...
The disciplinary matrix of holobiont biology
Uniting life’s seen and unseen realms guides a conceptual advance in research
www.science.org
August 12, 2025 at 1:12 PM
Reposted by Marc-Emmanuel Dumas
msmjetten.bsky.social
#Methane filtration and metabolic cooperation of microbial communities in cold seep water columns from South China Sea
www.nature.com/articles/s42...
Methane filtration and metabolic cooperation of microbial communities in cold seep water columns from South China Sea - Communications Biology
Metagenomic analysis of cold seep water columns reveals microbial diversity and metabolic interactions driving biogeochemical cycles, emphasizing key roles of methanotrophs and ecological stratificati...
www.nature.com
August 13, 2025 at 5:09 AM
Reposted by Marc-Emmanuel Dumas
evolvedbiofilm.bsky.social
Engineering natural microbial communities: harnessing synthetic communities for bioremediation

#CurrOpinMicrobiol from Xihui Xu, Nanjing Agricultural University

www.sciencedirect.com/science/arti...
Engineering natural microbial communities: harnessing synthetic communities for bioremediation
Microbial bioremediation, a technology using microbial metabolism to degrade or transform environmental pollutants, has garnered significant attention…
www.sciencedirect.com
August 9, 2025 at 12:43 PM
Reposted by Marc-Emmanuel Dumas
evolvedbiofilm.bsky.social
The mass spectrometry of microbiome-mediated metabolism of food: challenges and opportunities

#CurrOpinMicrobiol by @harshagouda.bsky.social et al from @pieterdorrestein.bsky.social

www.sciencedirect.com/science/arti...
The mass spectrometry of microbiome-mediated metabolism of food: challenges and opportunities
With the exception of molecules acquired through the lungs, skin absorption, or part of a medication regime, nearly all molecules in our bodies origin…
www.sciencedirect.com
August 9, 2025 at 12:45 PM
Reposted by Marc-Emmanuel Dumas
stephenturner.us
Weekly Recap (Aug 2025, part 2): Metagenome assembly from nanopore reads, AI for single-cell analysis, GxE + epistasis in a vertebrate model, estimating GxE for polygenic traits, long-read alignment, agents, nf-core, ... doi.org/10.59350/004... #Rstats #nextflow 🧬🖥️🧪
August 8, 2025 at 11:32 AM
Reposted by Marc-Emmanuel Dumas
gibbological.bsky.social
💥Personalized C. difficile colonization risk prediction and probiotic therapy assessment in the human gut💥

I'm very excited about this work, driven by Alex Carr & co-supervised by @cdiener.com

@cp-cellsystems.bsky.social @isbscience.org @nitinbaliga.bsky.social

www.cell.com/cell-systems...

🧵...
Personalized Clostridioides difficile colonization risk prediction and probiotic therapy assessment in the human gut
Carr et al. show how microbial community-scale metabolic models (MCMMs) predict personalized Clostridioides difficile colonization risk and probiotic efficacy. MCMMs reveal key metabolic strategies ex...
www.cell.com
August 6, 2025 at 4:51 PM
marcedumas.bsky.social
The Lancet Countdown on health and plastics - The Lancet www.thelancet.com/journals/lan...
The Lancet Countdown on health and plastics
Plastics are a grave, growing, and under-recognised danger to human and planetary health. Plastics cause disease and death from infancy to old age and are responsible for health-related economic losse...
www.thelancet.com
August 4, 2025 at 6:46 AM
Reposted by Marc-Emmanuel Dumas
imperialmed.bsky.social
We are deeply saddened by the passing of Professor Sir David Nabarro, Director of @imperial-ighi.bsky.social.

A dynamic British physician, he helped spearhead the @who.int response to #Malaria, #Ebola, and #COVID19.

Find out more about his incredible legacy(£)👇
www.thetimes.com/uk/obituarie...
Sir David Nabarro obituary: energetic global health expert
Dynamic British physician who helped to spearhead the World Health Organisation’s response to malaria, ebola and Covid-19, dies aged 75
www.thetimes.com
July 28, 2025 at 10:25 AM
Reposted by Marc-Emmanuel Dumas
keystonesymposia.bsky.social
⏳ Don’t miss it! Submit abstracts & scholarship apps for Microbiome Metabolism & Metabolites by Sept 23 (11:59 PM MT).
📍 Jan 19-22, 2026 | Banff, Canada
👉 keysym.us/KSMicroMetab26
#KSMicroMetab26 #Microbiome #Metabolomics @pieterdorrestein.bsky.social ‪@inesthiele.bsky.social
July 21, 2025 at 4:14 PM
Reposted by Marc-Emmanuel Dumas
pieterdorrestein.bsky.social
I am so excited about this meeting. I will cover the discovery of 10,000s new metabolites, including an entirely new class of molecules. Looking forward to hearing and discussing your science on microbiome metabolites and metabolism.
keystonesymposia.bsky.social Keystone Symposia @keystonesymposia.bsky.social · Jul 21
⏳ Don’t miss it! Submit abstracts & scholarship apps for Microbiome Metabolism & Metabolites by Sept 23 (11:59 PM MT).
📍 Jan 19-22, 2026 | Banff, Canada
👉 keysym.us/KSMicroMetab26
#KSMicroMetab26 #Microbiome #Metabolomics @pieterdorrestein.bsky.social ‪@inesthiele.bsky.social
July 21, 2025 at 4:54 PM
Reposted by Marc-Emmanuel Dumas
macwiatrak.bsky.social
💥 Excited to introduce Bacformer 🦠 - the first foundation model for bacterial genomics. Bacformer represents genomes as sequences of ordered proteins, learning the “grammar” of how genes are arranged, interact and evolve.

Preprint 📝: biorxiv.org/content/10.1...

🧵 1/n
July 21, 2025 at 9:56 AM
Reposted by Marc-Emmanuel Dumas
jcamthrash.bsky.social
Experimental evolution in an era of molecular manipulation www.nature.com/articles/s41... #jcampubs
Experimental evolution in an era of molecular manipulation - Nature Reviews Genetics
In this Review, Ascensao and Desai discuss how methodological advances in genotype and phenotype manipulation are transforming experimental evolution approaches and providing new insights into the und...
www.nature.com
July 21, 2025 at 4:25 PM
Reposted by Marc-Emmanuel Dumas
francoisleulier.bsky.social
A Drosophila single-cell 3D spatiotemporal multi-omics atlas unveils panoramic key regulators of cell-type differentiation: Cell
1/2

www.cell.com/cell/abstrac...
A Drosophila single-cell 3D spatiotemporal multi-omics atlas unveils panoramic key regulators of cell-type differentiation
This work introduces Flysta3D-v2, a 3D spatiotemporal multi-omics database that spans Drosophila development from embryogenesis to metamorphosis. Through the integration of multimodal data, we detail ...
www.cell.com
June 28, 2025 at 5:57 AM
Reposted by Marc-Emmanuel Dumas
magdalenaskipper.bsky.social
Does using ChatGPT change your brain activity?

A preprint suggesting that the brains of people writing an essay with ChatGPT are less engaged than are those without any online tools for the task may be generating too much attention given the size of the study…
🧪
www.nature.com/articles/d41...
Does using ChatGPT change your brain activity? Study sparks debate
Scientists warn against reading too much into a small experiment generating a lot of buzz.
www.nature.com
June 28, 2025 at 6:45 AM
Reposted by Marc-Emmanuel Dumas
mrc-tu.bsky.social
Happy World Microbiome Day! The Patil Lab at the MRC Toxicology Unit are fascinated by how our microbiome interacts with chemicals in our environment including in food, medicines and pollutants.

Brush up on your knowledge with these great figures made by @rhboston95.bsky.social
What does your gut microbiome do? - Help to break down food and its components - Protects your gut from pathogenic bacteria - Help to shape and regulate your immune system - Produce bioactive molecules, like short-chain fatty acids to support your gut cells - Synthesize essential vitamins The importance of the microbiome by the numbers - 10-100 trillion symbiotic microbial cells in each person - >10,000 different microbe species - The genes in our microbiome outnumber the genes in our genome by about 100 to 1 - Up to 90% of disease can be linked back to the gut microbiome
June 27, 2025 at 4:48 PM
Reposted by Marc-Emmanuel Dumas
embo.org
Looking for a #LifeSciences postdoctoral #opportunity? 🧪 Have a look at the EMBO Postdoctoral Fellowships for internationally mobile scientists in #Europe and globally.

Apply before 11 July: www.embo.org/funding/fell...
#research #funding #postdoc
Fellowships, grants and career support – Postdoctoral Fellowships – EMBO
Supporting internationally mobile postdoctoral researchers in Europe and around the world
www.embo.org
June 28, 2025 at 8:02 AM
Reposted by Marc-Emmanuel Dumas
zoehall-icl.bsky.social
Enjoying #metabolomics2025 in Prague! Just presented some of our work on #massspec imaging of #liver fibrosis! @gruevska.bsky.social
June 24, 2025 at 2:16 PM
Reposted by Marc-Emmanuel Dumas
nyupainresearch.bsky.social
Fascinating work on neuropathic pain! Researchers found peripheral nerve injury enhances 4E-BP1-dependent protein synthesis in spinal microglia, pushing them to a reactive state and promoting pain. Excitingly, inhibiting this process reversed pain www.jci.org/articles/vie...
JCI - 4E-BP1–dependent translation in microglia controls mechanical hypersensitivity in male and female mice
www.jci.org
June 12, 2025 at 9:38 PM
Reposted by Marc-Emmanuel Dumas
raeslab.org
📄 New collaborative publication:

"Dietary convergence induces individual responses in faecal microbiome composition"
Astrid Vermeulen et al., now in eGastroenterology.
🔗 egastroenterology.bmj.com/content/3/2/...
1/5🧵
Dietary convergence induces individual responses in faecal microbiome composition
Background Dietary variation has been identified as a key contributor to microbiome diversification. However, assessing its true impact in a cross-sectional setting is complicated by biological confou...
egastroenterology.bmj.com
June 4, 2025 at 7:52 AM
Reposted by Marc-Emmanuel Dumas
jatinnagpal.bsky.social
Microbiome for the clinicians | Cell

www.cell.com/cell/fulltex...
The microbiome for clinicians
Preclinical studies suggest a rapidly growing potential for the application of microbiome research in improving patient outcomes. This perspective lays out the potential steps that can be taken toward...
www.cell.com
June 4, 2025 at 8:23 AM