Francesco Beghini @fbeghini.bsky.social · 3hWhy it is always 100k? 100k for access to Truth social posts, 100k for the GC bond and so on 290
Francesco Beghini @fbeghini.bsky.social · 11/09/2026What a read about Mr Cohen & co., totally missed these guys, the Qi gong master was insanely enough 010
Francesco Beghini @fbeghini.bsky.social · 10/09/2026This reminds me about the papers about External Qi and quantum healing 120
Reposted by Francesco BeghiniChristian Kost @kostchristian.bsky.social · 24/08/2026Very happy that our paper Obligate cross-feeding of metabolites is common in soil microbial communities just came out in Nature Microbiology. See here 👇 Paywalled version: www.nature.com/articles/s41... Free read-only version: rdcu.be/fBHAbnature.comObligate cross-feeding of metabolites is common in soil microbial communities - Nature MicrobiologyCultivation-dependent techniques, computational analyses and genome-scale metabolic models show widespread amino acid auxotrophies, suggesting that soil microorganisms exist within integrated ecologic... 814256
Reposted by Francesco BeghiniAlvaro Sanchez @asanchezlab.bsky.social · 21/08/2026New preprint from the lab: The Latent Simplicity of Microbial Ecological Interactions www.biorxiv.org/content/10.6... We're excited about this one. We find that high-order microbial interactions often obey simple linear laws making microbial communities far more predictable than one might expect 37032
Francesco Beghini @fbeghini.bsky.social · 12/08/2026www.nytimes.com/interactive/...nytimes.comInflammation Keeps Us Alive. It's Also Making Us Sick. (Gift Article)The discovery that chronic inflammation is a cause of myriad illnesses could be this century's biggest medical breakthrough. 120
Reposted by Francesco BeghiniCarolyn Bertozzi @carolynbertozzi.bskyverified.social · 26/05/2026“Academic science is not only about productivity, it is also about deep understanding, exploring creative solutions and training critical thinkers to be the next generation of researchers.” www.nature.com/articles/d41...nature.comThe uncritical adoption of AI in science is alarming — we urgently need guard railsArtificial intelligence is rapidly accelerating scientific output, but risks narrowing inquiry, weakening judgement and undermining how scientists are trained. 114464
Reposted by Francesco BeghiniZamin Iqbal @zaminiqbal.bsky.social · 25/05/2026This is awful to hear, describing how Sean Eddy (HMMER, infernal, pfam, rfam) has been defunded. The letter said his work "had been determined to be of absolutely no value to the US taxpayer, and therefore it was being specifically terminated," www.npr.org/2026/05/21/n...npr.orgResearchers say the Trump administration is finding new ways to punish scienceEven with federal grants largely restored, scientists say the Trump administration is still preventing those funds from reaching them. The consequences, they say, are already becoming clear. 7144112
Reposted by Francesco BeghiniSteven Salzberg @stevensalzberg.bsky.social · 16/01/2026very sad news. Peer Bork was one of the leaders of our field, a wonderful scientist, and he's much too young to be gone. www.embl.org/news/embl-an...embl.orgIn remembrance of Peer Bork | EMBLEMBL and its community are deeply saddened by the death of Peer Bork, the organisation’s Interim Director General. 1014581
Reposted by Francesco BeghiniProf. Ruth Ley FRS @microbiome.bsky.social · 28/10/2025We selected the laziest mouse at each round to inoculate the next batch of germfree mice: over rounds of selection and passaging, behavior shifted without changes to the mouse genome: rdcu.be/eM3rO 🦠🧫rdcu.beSelection and transmission of the gut microbiome alone can shift mammalian behaviorNature Communications - Here, the authors present evidence that the gut microbiome alone, without changes in the host genome, can shape how animals respond to selection, identifying a bacterium and... 410837
Reposted by Francesco BeghiniAdrian Cazares @cazares-adr.bsky.social · 06/10/2025Imagine we could travel back in time ⏪⌛️to explore the world of bacterial pathogens before humans discovered and industrialised antibiotics We just did that to study the history of #AMR spread @science.org doi.org/10.1126/scie... If you like time travel & biology, this 🧵is for you👇doi.orgPre- and postantibiotic epoch: The historical spread of antimicrobial resistancePlasmids are now the primary vectors of antimicrobial resistance, but our understanding of how human industrialisation of antibiotics influenced their evolution is limited by a paucity of data predati... 37835
Reposted by Francesco BeghiniCarl T. Bergstrom @carlbergstrom.com · 31/12/2024My colleagues are using ChatGPT to source data and plot analyses for them. I'm literally reviewing papers written this way. Meanwhile.... 53709127
Francesco Beghini @fbeghini.bsky.social · 28/12/2024Thanks for linking it! I'll have a good look at it 010
Reposted by Francesco BeghiniScience Friday @scifri.bsky.social · 06/12/2024A new study found that we share parts of our microbiome with people in our social networks, beyond family members. Dr. @nachristakis.bsky.social joins us to discuss the research and how scientists can identify your friends—just by looking at your poop.buff.lyYou Share Your Gut Microbiome With Your FriendsNew research suggests that we share parts of our microbiome with people in our social networks beyond family members. 44617
Reposted by Francesco BeghiniBWJones @bwjones.bsky.social · 05/12/2024<taps the sign> This chart is a decade old, and that gap between the United States and the rest of the developed world, which has better health outcomes by the way, has gotten larger. We should morally, ethically, and fiscally move to a single payer system. It’s also a national security issue. 14500162
Reposted by Francesco BeghiniAltmetric @altmetric.com · 03/12/2024There are already many articles for which there is more attention on Bluesky than on other comparable micro-blogging sites, meaning the academic community and the general public have clearly adopted Bluesky as one of its core places to disseminate and discuss new research. A Place of Joy. 492498666
Reposted by Francesco BeghiniMark Pallen @mjpallen.bsky.social · 03/12/2024Letter sent in to the Editor of the Guardian on brain microbiome nonsense. 2134691
Reposted by Francesco BeghiniJames Marsh @jmarsh.bsky.social · 28/11/2024Interesting look at gut strain-level dynamics: The human gut has low strain variation compared to other environments and has a limited capacity for strain richness. #microbiome www.nature.com/articles/s41...nature.comGut microbiota strain richness is species specific and affects engraftment - NatureStrain richness of gut microbiota ecosystems is a key characteristic underpinning engraftment in faecal microbiota transplantation, and could improve the design of defined live biotherapeuti... 06126
Reposted by Francesco BeghiniFrancesco Beghini @fbeghini.bsky.social · 21/11/2024Excited to share our last work on microbiome transmission and social interactions published on Nature! The more people you interact with, the more similar your microbiome is. www.nature.com/articles/s41...nature.comGut microbiome strain-sharing within isolated village social networks - NatureAn investigation into the relationship between network structure and gut microbiome composition among people living in 18 isolated Honduras villages reveals that strain-sharing can be mediated by... 1258
Reposted by Francesco BeghiniEmilie Wigdor @emiliewigdor.bsky.social · 20/11/2024📣 Big news! Our tag-team effort on common variants in rare neurodevelopmental conditions is now out in Nature 📣 Co-first authoring with the brilliant Qinqin Huang🌟—proof that teamwork does make the dream work. 💪 www.nature.com/articles/s41...media.tenor.coma couple of cartoon characters standing next to each other with one wearing a purple earringAlt: a couple of cartoon characters standing next to each other with one wearing a purple earring 1115847
Francesco Beghini @fbeghini.bsky.social · 21/11/2024Thank you for curating this starter pack. Can I be added as well? 110
Reposted by Francesco BeghiniNicholas A. Christakis @nachristakis.bsky.social · 21/11/2024The bacteria in your gut depend on where you are in the social network around you. The microbes within us treat our social networks as the extended environment in which they thrive. They can spread from person to person. New #HNL work out today in @natureportfolio.bsky.social . 1/ 1112441
Francesco Beghini @fbeghini.bsky.social · 21/11/2024Congratulations! We got published in the same Nature issue as well! 110
Francesco Beghini @fbeghini.bsky.social · 21/11/2024We also see that clusters of people co-occur with clusters of strains, suggesting the existence of social network niches wherein similar individuals share similar microbes. 000
Francesco Beghini @fbeghini.bsky.social · 21/11/2024After two years, we studied the microbiome of 301 individuals and found that socially connected people had become more microbially similar than those who were not connected 100
Francesco Beghini @fbeghini.bsky.social · 21/11/2024Your microbiome can predict who your friends are, better than shared sociodemographic characteristics. Additionally, we have evidence of transmission chains; your friend’s friend is sharing some strains with you as well. 100
Francesco Beghini @fbeghini.bsky.social · 21/11/2024Using strain-level analyses, we show that strain transmission occurs in different relationship types, even between people not living in the same household and friends. We saw more transmission between people who interacted with each compared to those who had no relationship at all. 100
Francesco Beghini @fbeghini.bsky.social · 21/11/2024We analyzed the microbiome of 1787 people living in 18 remote villages in Honduras and mapped their social relationships. Those villages are part of a larger cohort including 24702 people living in 172 villages. doi.org/10.1126/scie...doi.orgInduction of social contagion for diverse outcomes in structured experiments in isolated villagesCertain people occupy topological positions within social networks that enhance their effectiveness at inducing spillovers. We mapped face-to-face networks among 24,702 people in 176 isolated villages... 100
Francesco Beghini @fbeghini.bsky.social · 21/11/2024Excited to share our last work on microbiome transmission and social interactions published on Nature! The more people you interact with, the more similar your microbiome is. www.nature.com/articles/s41...nature.comGut microbiome strain-sharing within isolated village social networks - NatureAn investigation into the relationship between network structure and gut microbiome composition among people living in 18 isolated Honduras villages reveals that strain-sharing can be mediated by... 1258
Reposted by Francesco BeghiniSegata Lab @cibiocm.bsky.social · 18/11/2024🥁 New Publication Alert: Our manuscript on the ☕️ and #microbiome relationship is out in #NatureMicrobiology: www.nature.com/articles/s41... 1/12nature.comCoffee consumption is associated with intestinal Lawsonibacter asaccharolyticus abundance and prevalence across multiple cohorts - Nature MicrobiologyCoffee consumption is associated with the presence and abundance of a specific member of the human gut microbiome, Lawsonibacter asaccharolyticus, and changes to the plasma metabolome. 210645
Reposted by Francesco BeghiniJulien Tap @julientap.bsky.social · 18/11/2024for Coffee fans #microbiome www.nature.com/articles/s41...nature.comCoffee consumption is associated with intestinal Lawsonibacter asaccharolyticus abundance and prevalence across multiple cohorts - Nature MicrobiologyCoffee consumption is associated with the presence and abundance of a specific member of the human gut microbiome, Lawsonibacter asaccharolyticus, and changes to the plasma metabolome. 1106
Reposted by Francesco BeghiniGabriele Pollara @gpollara.bsky.social · 04/10/2024The march of the mRNA vaccines goes on. Clostridiodes difficile (C diff) next... #IDSky #MicroSky #MedSky 🧪 www.science.org/doi/10.1126/...science.orgA multivalent mRNA-LNP vaccine protects against Clostridioides difficile infectionClostridioides difficile infection (CDI) is an urgent public health threat with limited preventative options. In this work, we developed a messenger RNA (mRNA)–lipid nanoparticle (LNP) vaccine targeti... 12913
Reposted by Francesco BeghiniZamin Iqbal @zaminiqbal.bsky.social · 15/11/2024Align to AllTheBacteria with low RAM (1-2Gb) and quickly (seconds if just 1000s of hits, 15 mins for a gene present in all 2.4 million genomes) using @shenwei356.bsky.social Lexicmap. So you can basically BLAST AllTheBacteria locally - but need 3-4Tb disk for index www.biorxiv.org/content/10.1... 25636
Reposted by Francesco BeghiniMartin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 15/11/2024New GPU-based MMseqs2: 20x faster searches on a single L40S (approx. as fast as a RTX 4090) vs. a 128-core CPU. This work enables to set up a very cost-efficient ColabFold MSA GPU server. 🧵🧵 📄 www.biorxiv.org/content/10.1... 💾 mmseqs.com 🗞️ developer.nvidia.com/blog/boost-a... 217359
Francesco Beghini @fbeghini.bsky.social · 15/11/2024UHGG has eggnog annotations for representative genomes 100
Reposted by Francesco BeghiniRandall Munroe @xkcd.com · 13/11/2024Geometriphylogenetics xkcd.com/3010 1016998811
Francesco Beghini @fbeghini.bsky.social · 18/09/2024New Haven and North, West, East Haven. Seriously? 110
Francesco Beghini @fbeghini.bsky.social · 27/02/2024liorpachter.wordpress.comAll of Us failedThe All of Us Research Program, whose mission is to “to accelerate health research and medical breakthroughs, enabling individualized prevention, treatment, and care for all of us”, rec… 051
Reposted by Francesco Beghinic0nc0rdance @c0nc0rdance.bsky.social · 11/11/2023Dear International Taxonomy Committee. I am yet again proposing a series of changes to the common names of animals for the Internet Era. Your prompt response is appreciated. 1. Texas Turtle-Rat. Alternative: Tactical Assault Possum 1419366
Reposted by Francesco BeghiniJonathan Jarry @jonathanjarry.bsky.social · 31/10/2023Fantastic investigation by Rina Raphael on Viome, which sells you a problem and then sells you a solution. It's microbiome diagnostic scienceploitation + a supplement bonanza. She spoke to a dozen former employees. www.bloomberg.com/news/feature... (Readable through Apple News, BTW)bloomberg.comIs This Poop-Test Startup Just Wellness Theater?Viome—Naveen Jain’s latest company—says its microbiome tests and customized supplements hold the secret to better health. Scientists and former employees aren’t so sure. 1116
Reposted by Francesco BeghiniElly Vintiadis @ellyvintiadis.bsky.social · 31/10/2023Now this is REALLY scary! 0113