Gut microbes sound the alarm during sleep loss Leone et al. find short-term sleep loss in healthy humans alters 24-hr rhythmic profiles of circulating microbially derived metabolites, including butyric acid & tryptophan catabolites, relative to habitual sleep: doi.org/10.1172/JCI1...

New paper in mSystems! 🧵 - how much of your metagenome is actually bacterial/archaeal DNA? For many samples, nobody knows. We built SingleM prokaryotic_fraction (SPF) to answer this, then ran it on >100,000 public metagenomes. 🧬🖥️🦠 Here's what we found 👇 doi.org/10.1128/msystems.01062-25

🚨 A new piece of the preterm gut microbiome puzzle just fell into place! Bifidobacterium metabolise human milk oligosaccharides (HMOs) in early life — shaping immunity, supporting gut development, and protecting against diseases like necrotising enterocolitis (NEC). www.nature.com/articles/s41...

Our new study shows that a human-derived Bacteroides salyersiae can reverse depressive-like behavior in a chronic stress model, with effects comparable to ketamine. The talented @philstrandwitz.bsky.social to creating microbiome-based antidepressant therapeutics. link.springer.com/article/10.1...

A single course of antibiotics can have lasting effects on your gut microbiome, with changes that last well beyond 4 years. Three types of antibiotics stood out for their long term disruptive impact (3 at left, Figure) nature.com/articles/s41...

Impressive new study by @tovefall.bsky.social showing some antibiotics impact the gut microbiome >4 years www.nature.com/articles/s41... I shared some thoughts with Scientific American: www.scientificamerican.com/article/a-si... Sadly, they did not include my answer to the question... 1/2

Out today: We discovered new viral proteins that target immune signaling molecules, solely based on their AlphaFold-predicted shapes www.science.org/doi/10.1126/... Congrats Nitzan Tal and coauthors! Thank you Kranzusch lab for the fun collaboration! Linking below previous thread on our findings

"Can you trust the results from gut microbiome tests? Maybe not." www.sciencenews.org/article/resu... I understand why the authors didn't disclose the different company IDs...but I'm very curious to know which is which

Our latest is out today in @plosbiology.org: "Metabolic modeling reveals determinants of prebiotic and probiotic treatment efficacy across multiple human intervention trials" @isbscience.org @uwbioe.bsky.social @uwgenome.bsky.social doi.org/10.1371/jour...

In this report from Singapore, the release of wolbachia-infected, irradiated male 𝘈𝘦𝘥𝘦𝘴 𝘢𝘦𝘨𝘺𝘱𝘵𝘪 mosquitoes resulted in a reduction in the vector population and in the risk of dengue infection. Full report: nej.md/4atd2iN #MedSky #IDSky

#NatMicroPicks FMT for cancers in clinic! 💩🦠🦀⚕️ Three different clinical trials report activity of faecal microbiota transplant against cancer #MicroSky #CancerSky www.nature.com/articles/s41... www.nature.com/articles/s41...

Largest oral microbiome GWAS (n=12519; SPARK): 11 host loci (incl FUT2 and AMY1 CNV) shape oral community composition and even bacterial genomes. Signals colocalize with dentures/tooth-loss risk in UKB, suggesting specific host–microbe interactions in cariogenesis www.nature.com/articles/s41...

More and more cool work looks at the role of human archaea in health outcomes. In this preprint, authors suggest protective role & show that colonisation of mice with M. smithii or M. stadtmanae thickens mucus, boosts reg. T cells & protects vs DSS colitis. www.biorxiv.org/content/10.6...

Jothan Suez, PhD, @suez.bsky.social, who studies sweeteners @jhu.edu @johnshopkinssph.bsky.social, comments on @wsj.com article www.wsj.com/health/new-d...

Super excited to share my latest publication with Justin Malogan and @suez.bsky.social , my love letter to viromics! 🦠 Here, we discuss computational and wet lab methods to study the gut virome and how they can be used together But why is this synergy so important? journals.asm.org/doi/10.1128/...

🦠 How do microbes arrive together, and why does it matter for #microbial #diversity? 👉 Read the paper: journals.plos.org/ploscompbiol... Published in @plos.org Computational Biology 🎉 Congratulations to authors Loïc Marrec & Sonja Lehtinen @sonjalehtinen.bsky.social @unil.bsky.social @sib.swiss

It's increasingly clear that commensal viruses play important roles in human health, but how do you study them? Our review "Tools and approaches to study the human gut virome: from the bench to bioinformatics" is out today in mSystems! journals.asm.org/doi/10.1128/... @haleybiont.bsky.social

Our new paper, where we use metabolic modeling to show Fusobacterium grows faster in colorectal tumor vs normal tissue microenvironments, and use computational + experimental approach to find specific metabolic pathways driving host-microbiome interactions in cancer www.biorxiv.org/content/10.6...

A new community-driven lab handbook for reducing conflict and creating more positive and equitable work environments gets strong support from a survey of 200 researchers. buff.ly/K7CGFLV

Out after peer-review: www.science.org/doi/full/10.... Our bottom line stayed: never use leave-one-out cross-validation as it has inherent train-test leakage. Consider our Rebalanced version instead! We now also account for regression and nested cross-validation, with more extensive benchmarking.

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-...

Campus friends @ Homewood

BIG ANNOUNCEMENT📣: I haven’t been this excited to be part of something new in 15 years… Thrilled to reveal the passion project I’ve been working on for the past year and a half!🙀🥳 (thread 👇)

Congrats to Yancong, Amrisha, Xochitl, Eric and all co-authors!!!

Love this approach!

#NewResearch Prion-like proteins in Escherichia coli trigger an abortive infection mechanism in response to phage infection—a process similar to amyloid-mediated immune signalling in fungi and animals. #MicroSky 🦠 www.nature.com/articles/s41...

💥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... 🧵...

We are hiring a postdoc - come work with us (www.koremlab.science) at the intersection of #microbiome, data science, and women's health! Message or email me if interested. 🖥️ 🧬

Excited 🥳 to share our latest work on gut phages! Big thanks to @epcrocha.bsky.social, Erick D, Camille d'H, @fplazaonate.bsky.social, Quentin LB, and all others involved for support and contributions! 🙌 Out in Cell Reports @cp-cellreports.bsky.social doi.org/10.1016/j.ce... Here's what we found 🤓

Really cool work, congrats Gechlang, Sean, and team! 👏🏽

Sucralose may interfere with cancer immunotherapy - exciting and important new research from @overacrelab.bsky.social in @theaacr.bsky.social! aacrjournals.org/cancerdiscov... (AI-rendered illustration of the article's title) 1/🧵

🌿💡 Just dropped: our 4‑bug SynCom eats 8 herbicides (up to 99 % gone in a month) and revs up soil carbon metabolism. Microbes doing double duty for cleaner, richer black soils. Check the iMeta paper: onlinelibrary.wiley.com/doi/full/10.... #SoilSci #Bioremediation

It's finally out!🎉 We known that the #microbiome confers colonization resistance against #pathogens, we know that some meds 💊 affect gut microbes 🦠 So, do 💊 alter colonization resistance? It turns out that some do! If you wanna know more, check out our latest work www.nature.com/articles/s41...

A gut microbiome metabolite promotes atherosclerosis by hijacking the immune system @nature.com nature.com/articles/s41... www.nature.com/articles/d41...

To learn more about SeqCoast including direct orders with transparent pricing, visit seqcoast.com Sequence smarter, discover more (said in a New Hampshire accent 😉)

⚡🦠I'm very excited to share our latest work on the gut microbiome and metabolic dysfunction-associated steatotic liver disease (MASLD) is published in @natmetabolism.nature.com, with @hutlab.bsky.social & @longnguyen.bsky.social! 🔗Check out the paper here: www.nature.com/articles/s42...

Our paper demonstrating that within-species warfare interactions are ecologically important on human skin is now published in Nature Micro! www.nature.com/articles/s41...

Applications are now open for the 2026 Takeda Innovators in Science Award with Nature. Early-career researchers in GI & inflammatory disease, neuroscience or oncology: Win a share of US$400K and earn global recognition. Apply today: go.nature.com/4jBp3oM #Academicsky

I am once again pitching my romantic comedy: - two academics start dating - discover they are each other's terrible reviewer - hijinks ensue Working title: Love is Double-Blind

Research Saves Lives At Hopkins, we just went live with an expansive website showing the extraordinary value of research, the impact of cuts to research, what's at stake, resources for our research community, etc. Check it out: researchsaveslives.jhu.edu

our lab is blessed to have 3 new postdoctoral fellow positions. we would welcome scientists interested in...

Well, it being #Pride month and all, let's kick things off with a couple of starter packs I haven't shared in a while ... The awesome folks at @prideinstem.bsky.social have made it super easy for you to queerify your TL, by following the good folks in these three starter packs: 1/2 🏳️‍🌈🏳️‍⚧️

. @haleybiont.bsky.social have fun? 🙂

Antibiotics disrupt gut microbes, but what about their viruses? A new study finds that gut phages crash, bloom, and bounce back after antibiotics, helping restore microbial balance via kill-the-winner dynamics. ✍️ @eugenpfeifer.bsky.social & coll. 📖 shorturl.at/AtafX #MicroSky #AMR

✨ Job Alert: Bioinformatician & Data Manager ✨ Support our research on milk, microbiomes and maternal & infant health! 📍Remote (within Canada) or In-person 💵 $74K–$107K + benefits ⏱️ Full Time 🎓 MSc & 4+ yrs experience req'd Apply at: umanitoba.ca/careers/ (#38485) Pls share! 🙏🏻🧪

📣 #NatureMedicine is hiring a new editor with expertise in #AI, #DigitalMedicine and/or Health #Informatics! This job is open to applicants in NYC 🗽and Milano 🎭! Deadline is Fri, May 30th. Please share! springernature.wd3.myworkdayjobs.com/SpringerNatu... cc: @natureportfolio.nature.com

Excited to share the Compendium Manager -- our new tool for scaling bioinformatics pipelines! Launch thousands of analyses, track progress, and maintain reproducibility. Developed by @richabdill.com. Check it out: arxiv.org/abs/2505.11385

Deaths from heart disease down 75%, that’s NIH. Deaths from stroke down 75%, that’s NIH. HIV/AIDS no longer a death sentence, that’s NIH. 99% of FDA approved drugs in the last decade, that’s NIH. Please show this video to anyone who doesn’t understand why the NIH is so important.

AI perpetuates knowledge artefacts. Mind you, a look at PubMed will tell you that humans are pretty good at perpetuating these too.. theconversation.com/a-weird-phra... ht @cyrilpedia.bsky.social

A lot of what looks like microbial engraftment after FMT might actually be noise. Using placebo sequencing and culture-enriched metagenomics, we sort signal from noise. Our latest from the Surette lab: www.nature.com/articles/s41... @surettem.bsky.social @mcmasteruniversity.bsky.social