Is it not just “good” and “bad” bacteria but their absolute abundance, i.e, quantitative microbiome parameters (QMPs) that control the #microbiome’s effect on the host? Check out our new paper in @cp-cellreports.bsky.social: www.cell.com/cell-reports...

Distinct compositional changes but shared quantitative microbiome and anti-inflammatory modulations by diet

Reported gut microbiome associations with diet and disease are frequently inconsistent between studies and interventions. Ruple et al. show that a high-fiber diet and time-restricted feeding induce si...

cell.com

📢 new paper alert! 📢 Do we find the same #bacteria in the mouth and in the gut of stunded children? Go find out: doi.org/10.1080/1949... #microbiome #gut #gutmicrobes #metagenomic With @vonaeschlab.bsky.social at @dmf-unil.bsky.social

Strain-level translocation and enrichment dynamics 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 or...

doi.org

Excited to share our new study out in Nature Communications. We mapped the composition of the human breast #milk #microbiome and showed that microbes present in breast milk directly contribute to the assembly of the #infant gut microbiome in the first months of life. www.nature.com/articles/s41...

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

"both air sharing and physical contact enabled bidirectional transmission: U.S. mucus-degrading taxa (e.g., Akkermansia) was transferred into Thai microbiomes, while Thai-derived, potentially health-promoting bacteria colonized U.S. microbiomes." doi.org/10.1080/1949...

We're hiring a #postdoc with knowledge of the #microbiome, #microbiology, #bioinformatics, #computationalbiology to understand the role of the vaginal microbiome in women's health. #Baltimore #womenshealth Learn more: bit.ly/CAMRIpostdoc

In #Microbiome: 🦠Exploring how the microbiome influences fertility & preconception health 🚨Offering a systems-level lens through which to understand & improve reproductive health by linking diet, immunity, metabolism & hormonal signaling Read more👉 doi.org/p7cw

Cool paper: doi.org/10.1016/j.ce... "different fermentation products [profiles] released [vary a lot more depending on] microbiome composition [than] daily production of bacterial biomass + release of fermentation products" "diet not microbiota [is] dominant factor for fermentation product harvest"

Can we predict small intestinal microbiota traits from saliva? Read our new paper “Contamination-controlled upper gastrointestinal microbiota profiling reveals salivary-duodenal community types linked to opportunistic pathogen carriage and inflammation”, doi.org/10.1080/1949...

Contamination-controlled upper gastrointestinal microbiota profiling reveals salivary-duodenal community types linked to opportunistic pathogen carriage and inflammation

The upper gastrointestinal (uGI) microbiota has been implicated in infectious, metabolic, and immunological conditions, yet remains poorly characterized due to invasive sampling and low microbial b...

doi.org

Microbial community-scale metabolic models (MCMMs) map gut microbiome composition & dietary context to functional outputs, at scale. Here, we describe these emerging tools & their utility to both basic & translational microbiome research. @natmicrobiol.nature.com www.nature.com/articles/s41...

Moving from genome-scale to community-scale metabolic models for the human gut microbiome - Nature Microbiology

In this Perspective, Deiner, Gibbons and colleagues describe the current strengths and limitations of microbial community-scale metabolic models in microbiome research.

nature.com

New editorial at Microbiome 🦠 ! Co-authored by the Senior Editors, it aims to highlight current challenges in the field of environmental and host-associated microbiome research and provides a blueprint for contemporary studies of the microbiomes. microbiomejournal.biomedcentral.com/articles/10....

A blueprint for contemporary studies of microbiomes - Microbiome

This editorial piece co-authored by the Senior Editors at Microbiome aims to highlight current challenges in the field of environmental and host-associated microbiome research. We also take the opport...

microbiomejournal.biomedcentral.com

Sawhney et al. followed 52 infants from birth to age 8, uncovering how gut microbiomes shift, stabilize, and evolve. A key finding: the emergence and timing of Bacteroides- and Prevotella-dominated enterotypes. 👶🧬 1/n

Gut microbiome evolution from infancy to 8 years of age - Nature Medicine

In a unique cohort of twins followed from birth to 8 years of age, shotgun sequencing of stool samples reveals that the transmission, persistence and evolutionary adaptation of bacterial strains are s...

doi.org

Principles of gut microbiota assembly

Principles of gut microbiota assembly

The gut microbiota plays a critical role in human health, yet its taxonomic complexity, interpersonal variability, and resistance to change in adulthood present challenges for understanding the factors driving shifts in its composition and function. Here,…

dlvr.it

Minimal lasting gut microbiome perturbation after antibiotic (amoxicillin) treatment in children, which mostly affected bifidobacteria: microbiomejournal.biomedcentral.com/articles/10....

Antibiotic exposure is associated with minimal gut microbiome perturbations in healthy term infants - Microbiome

Background The evolving infant gut microbiome influences host immune development and later health outcomes. Early antibiotic exposure could impact microbiome development and contribute to poor outcome...

microbiomejournal.biomedcentral.com

Microbiota assembly in SPF mice: rdcu.be/d9yMn - No bifidobacteria in neonatal mice, no clear maternal source of pioneer strains.

Great study + opportunity to repost old tweets about our related meta-analysis: www.sciencedirect.com/science/arti..., which was smaller + focused on maternal strain transmission but also early-life #microbiome maturation, incl. oxygen-tolerant to intolerant species-dominated microbiome transition.

Strain inheritance and neonatal gut microbiota development: A meta-analysis

As many inflammatory and metabolic disorders have been associated with structural deficits of the human gut microbiota, the principles and mechanisms …

sciencedirect.com

Vanja Klepac-Ceraj@mightycrobe.bsky.social · 2y ago

Super proud of this paper on infant gut microbiome age coming from my lab. The paper has just been published with @springernature.bsky.social in @naturecomms.bsky.social. Read about it here: rdcu.be/d6cCw.

“The gut microbiota predicts and time-restricted feeding delays experimental colitis” New paper out from our group in GutMicrobes: www.tandfonline.com/doi/full/10..... Congratulations to first authors Hannah Ruple and Eva Haasis. (1/x)

The gut microbiota predicts and time-restricted feeding delays experimental colitis

The etiology of inflammatory bowel disease (IBD) remains unclear, treatment options unsatisfactory and disease development difficult to predict for individual patients. Dysbiosis of the gastrointes...

tandfonline.com

Our study @cellpress.bsky.social finds healthy Canadians that consume a non-industrialized-type #diet can modulate their #microbiome, boost beneficial metabolites and improve their health. In just 3 weeks: LDL cholesterol ↓17% fasting glucose ↓6% CRP ↓ 14% www.cell.com/cell/fulltex...

Cardiometabolic benefits of a non-industrialized-type diet are linked to gut microbiome modulation

Is it possible to restore the human gut microbiome in industrialized settings and reintroduce microbial species that have been lost? In healthy adults, Li et al. found that consuming a diet mimicking ...

cell.com

🎉New article from our team demonstating that a #microbiota derived #bileacid improves hepatic #cholesterol levels in mice with cancer #cachexia! Congratulations to Morgane Thibaut & Martin Roumain! Thanks to our collaborators, the FNRS and the @welbio.bsky.social www.tandfonline.com/doi/full/10....

The microbiota-derived bile acid taurodeoxycholic acid improves hepatic cholesterol levels in mice with cancer cachexia

Alterations in bile acid profile and pathways contribute to hepatic inflammation in cancer cachexia, a syndrome worsening the prognosis of cancer patients. As the gut microbiota impinges on host me...

tandfonline.com

Today we report that an engineered skin bacterium, swabbed gently on the head of a mouse, can unleash a potent antibody response against a pathogen. Could lead to topical vaccines that are applied in a cream. @djenetbousbaine.bsky.social led the charge... @natureportfolio.bsky.social 1/55

New research shows gut physiology, e.g. transit time and pH, influence microbiome variation and metabolism. These findings implicate a personalized approach and repeated sampling in microbiome studies to capture individual differences and daily dynamics. #Microbiome

Henrik M. Roager@hroager.bsky.social · 2y ago

Today we publish an (in my opinion) important paper in @naturemicrobiol.bsky.social 🍾 showing that gut physiology and environment are factors explaining substantial variations in human gut #microbiome composition and #metabolism🦠 Fantastic work Procházková et al. 👏 www.nature.com/articles/s41...

We found something interesting in the evolution of plant microbiota. It is under review and we published the preprint today. Avi Bograd from my lab analyzed the genomes of 38,912 bacteria and identified a clear depletion of all MGE types in plant-associated bacteria vs. non-plant associated bacteria

Hot off the press: "Fecal microbial load is a major determinant of gut microbiome variation and a confounder for disease associations" www.sciencedirect.com/science/arti... See below for @suguru-nishijima.bsky.social 's thread on the preprint! #microsky #microbiome

Fecal microbial load is a major determinant of gut microbiome variation and a confounder for disease associations

The microbiota in individual habitats differ in both relative composition and absolute abundance. While sequencing approaches determine the relative a…

sciencedirect.com

Suguru Nishijima@suguru-nishijima.bsky.social · 2y ago

Excited to share our latest preprint on a novel computational tool to predict fecal microbial load solely from relative species profiles! Our study revealed that fecal microbial load is a substantial confounder in microbiome-disease association studies. www.biorxiv.org/content/10.1...