Congratulations to postdoc Sacha Lebon on publishing his graduate work! Using single-cell profiling, his study reveals how intestinal epithelial stem cells sense and respond to bacterial invasion. www.nature.com/articles/s41...

Early-life interventions & airway microbiome Nasal microbial gene atlas in infants w/cystic fibrosis. Hypertonic saline inhalation reshapes microbiome, selects salt-tolerant H. influenzae & ⬆️transporters linked to antibiotic tolerance @thexavierlab.bsky.social www.cell.com/cell-host-mi...

What the nose knows of cystic fibrosis microbes and hypertonic saline Bouzek Previews work by @thexavierlab.bsky.social presenting microbial gene atlas of nasopharyngeal swabs in infants w/cystic fibrosis & healthy controls & IDing impacts of clinical interventions www.cell.com/cell-host-mi...

Excited to share this new preprint from a large collaborative effort using #exome + #genome sequencing, moving beyond GWAS to implicate 68 genes in #IBD through rare protein-coding variation. bit.ly/43h72GA @broadinstitute.org @mgbresearch.bsky.social

Excited to share our new @cp-immunity.bsky.social review, discussing how advances in functional genomics and chemical biology are enabling the translation of IBD genetics into mechanistic understanding and new therapeutic hypotheses. www.cell.com/immunity/ful... #IBD #inflammatoryboweldisease

Out now in @cp-cellhostmicrobe.bsky.social! In collaboration with Swiss clinicians, we built the largest nasal microbial gene atlas in infants w/ and w/o cystic fibrosis to date (cont.)

Our latest work, with Mika Kivimaki's lab, now online @alzdemjournals.bsky.social: we used single-cell and GWAS data to uncover genes in peripheral blood immune cells associated with Alzheimer’s disease. doi.org/10.1002/alz.... @broadinstitute @MGHMolBio @MGBResearchNews #Alzheimers

New work with @CarolineUhler, now online in @natcomms.nature.com! We developed TRIM, a multimodal framework integrating T cell RNA and TCR profiling to predict T cell responses to cancer treatment. www.nature.com/articles/s41... @broadinstitute @MGHMolBio @MGBResearchNews

New study, in collaboration with Kenya Honda, out now in @nature.com. We show how a low protein diet drives a microbiota-dependent induction of thermogenic brown adipocytes via FXR & FGF21 pathways. www.nature.com/articles/s41...

Check out this great write-up of a recent study between the @broadinstitute.org , University of Helsinki, and other institutions which has found more than 400 genetic markers that are linked to autoimmune hypothyroidism (AIHT). (1/4) www.broadinstitute.org/news/study-r...

Excited to share our new study defining the multicellular ecosystem of atopic dermatitis. Integrating >700k single cells from healthy and inflamed skin, we uncover disease-specific immune circuits linked to disrupted keratinocyte differentiation. www.nature.com/articles/s41...

7/ Thanks to Elena Wu and senior authors Damian Plichta, @carriesokol.bsky.social, @thexavierlab.bsky.social, Sergio Bacallado. A cross-disciplinary effort across @broadinstitute.org, @massgeneralbrigham.bsky.social, @cam.ac.uk, @cuanschutz.bsky.social, @gatescambridge.bsky.social

(1/2) New paper out now in Cell Systems @cellpress.bsky.social describing development of a deep learning framework to predict allergenic microbial proteases! www.sciencedirect.com/science/arti... @broadinstitute.org @mgbresearch.bsky.social

We’re looking forward to the upcoming 2nd International Conference on Individualized Infection Medicine in Hannover, 19–21 March 2026. Registration is still open! www.ciim-hannover.de/aktuelles/sy...

Nice to see our recent CARD9 work covered in @natrevdrugdiscov.nature.com, with a focus on our two-step screening approach for identifying binders of challenging targets. www.nature.com/articles/d41...

Excited to share our latest study in Cell Genomics, combining single-nucleus RNA-seq, spatial transcriptomics, and histology to dissect the molecular determinants of lung fibrosis! www.cell.com/cell-genomic... #fibrosis #lung #ILD

(🧵1/7) New work, now online in @CellCellPress! Using a phased, binder-first strategy, we identified a ligandable pocket on CARD9 and discovered a small-molecule inhibitor of CARD9 inflammatory signaling. www.sciencedirect.com/science/arti...

Fun collaboration with @thexavierlab.bsky.social and Ribbeck groups to figure out how this human lectin plays multiple roles in controlling the #microbiome: stabilizing the mucus barrier and reducing bacteria that breach it. news.mit.edu/2026/protein... #glycotime

Amazing work–with potential therapeutic implications–by the @laurakiessling.bsky.social group reveals dual actions of interlectin-2 in stabilizing mucosal barriers and targeting bacteria that escape a compromised barrier www.nature.com/articles/s41...

Very excited to share our latest work in @Nature integrating single-cell & spatial transcriptomics with bidirectional CRISPR screens to unravel an immune–stromal cell circuit dependent on the transcription factor GLIS3 that regulates intestinal fibrosis during chronic inflammation. Congrats, Vlad!

New in @NatureComms — collaborative work with the Knip & Orešič labs uncovers microbially conjugated bile acids in early life linked to immune development and type 1 diabetes risk. pubmed.ncbi.nlm.nih.gov/41339624/ @broadinstitute.org @mgbresearch.bsky.social

Register now for the International Human Microbiome Consortium (#IHMC) 2026, June 3–5 in Seoul, Korea! Join this global gathering of researchers for an exciting program highlighting the latest discoveries in human #microbiome science: www.ihmc2026seoul.com/html/

Excited to share our new FinnGen single-nucleus multiome preprint! 🧬 We profiled ~10M PBMCs (snRNA-seq + snATAC-seq) from 1,108 Finnish donors to map how genetic variants drive complex disease through chromatin and gene regulation 🧵👇 🔗 Link: www.medrxiv.org/content/10.1...

Registration now open for the International Congress of Mucosal Immunology (ICMI) 2026, Jul 13–17 in Montreal, Canada. www.socmucimm.org/meetings-eve... Looking forward to being part of this lineup of talks highlighting research at the interface of the immune system and mucosal surfaces!

Kumar Thurimella & co-authors addressed the challenge of functionally annotating uncharacterized microbial enzymes with CAZyLingua, a deep learning model for classifying CAZymes from metagenomics. (1/2)

Solute carrier (SLC) transporters are implicated in many human diseases. In @jclinicalinvest, we show that efavirenz potentiates metal transporter SLC39A8 via a cryptic allosteric pocket—revealing new potential for therapeutic targeting. www.jci.org/articles/vie...

In Nov issue: rupress.org/jem/issue/22... @thexavierlab.bsky.social describe the biological function of Ankrd55 in mice, working as a functional modulator of T cell metabolism impacting Th17 responses. Cover shows a colon section of a mouse that received Ankrd55−/− T cells doi.org/10.1084/jem....

Congrats to Jinjin Xu & co-authors – an image from their recent @jem.org article that describes Ankrd55 as a modulator of T cell metabolism impacting Th17 responses was selected for the cover! Read the study here: rupress.org/jem/article-... @broadinstitute.org @mgbresearch.bsky.social

Great summary from the @mgbresearch.bsky.social team on our new Science paper about ENS–immune system interactions! Check it out: www.massgeneralbrigham.org/en/about/new...

Check out our new study in @ScienceMagazine! Using single-cell transcriptomics, we profile enteric nervous system responses to the microbiota and inflammation, identifying regulators of motor #neuron states and #gut transit time. www.science.org/doi/10.1126/...

Excited to share new work in @NatureMicrobio! Using metagenomics, we show how #HIV infection and treatment shape the gut microbiome across geographic regions & find ART-induced phageome changes linked to inflammation and atherosclerosis. www.nature.com/articles/s41...

🔦 Spotlight! The Korean Association of Immuologists International 2025 is convening Oct 30th-Nov 1st in Incheon, South Korea. KAI 2025 will address current topics in immunology, encompassing both fundamental research and its application to immunological diseases. kai2025.kr

In his “Harvard Medical School 2025 State of the School Address”, Dean George Daley highlighted our collaboration with the Clardy lab studying the connection between the gut microbiome and depression @harvardmed.bsky.social @broadinstitute.org #vimeo #microbiome #depression #gut

The @genelayinstitute.bsky.social is excited to host its third #ReThinkNeuroimmunology meeting from October 14-16th, 2025. This year will focus on discussing major discoveries & breakthroughs in neuroimmunology, single cell genomics, immunology, & neuroscience. genelayinstitute.org/rtn/

Our latest effort to translate genetic risk variants to disease mechanisms revealed that the R448G missense mutation in nuclear receptor coregulator NRIP1 promotes tissue inflammation via inefficient repression of a retinoic acid-mediated T cell gut-homing program. www.pnas.org/doi/10.1073/...

ANKRD55 is associated with risk for multiple autoimmune diseases, but without a clear mechanism. In a new @jem.org study, we show that ANKRD55 promotes differentiation of inflammatory T cells via mitochondrial regulation, suggesting a new target for autoimmunity: rupress.org/jem/article-...

Xu, @thexavierlab.bsky.social et al @harvardmed.bsky.social @broadinstitute.org reveal an important role of the ANKRD55 protein in TH17 biology, where its deletion impairs T cell proliferation & effector cytokine production through metabolic dysregulation. rupress.org/jem/article/... #Autoimmunity

NEW in PNAS: Our collaboration w/ the Seyedsayamdost lab, from Princeton University's Dept of Chem, revealed that indole-derived compounds produced by IBD-associated Campylobacter concisus are key modulators of inflammation www.pnas.org/doi/10.1073/... @broadinstitute.org @mgbresearch.bsky.social

For a great example of complex science presented clearly and compellingly, check out this Base by Base PaperCast episode! It covers a recent @finngen.bsky.social n study showing protective effects of CFHR5 loss-of-function against age-related macular degeneration. Links below 👇

Online now a multicenter Crohn's Disease study of South Asian patients that explores environmental impacts on #CD, linking geography and immigrant status with disease presentation and serologic markers. linkinghub.elsevier.com/retrieve/pii... #crohnsdisease

Check out our recent work with John Rioux and the iGenoMed Consortium! Serum proteomic and metabolomic profiling in #IBD patients initiating vedolizumab identified pro-inflammatory analytes associated with treatment response. onlinelibrary.wiley.com/doi/10.1111/...

In our latest collab w/the Clardy Lab @HarvardMed to mine microbial metabolites for immunomodulators, we identified how Eggerthella lent—one of the most studied & least understood members of the human gut microbiome—upregulates inflammatory responses in a cell- & antigen- independent fashion. (1/2)

Very excited to share our latest work in @NatureGenet with the Smillie lab: a spatial transcriptomics atlas of stricturing #Crohns disease that offers new insights into mechanisms driving fibrotic complications in chronic gut inflammation...(cont.) www.nature.com/articles/s41...

(1/6) Our latest paper in ‪@cp-cellhostmicrobe.bsky.social‬ shows that sphingolipids in Bacteroides outer membrane vesicles (OMVs) induce a tolerogenic host cell response through the cholesterol biosynthesis pathway. www.cell.com/cell-host-mi...

Bacterial sphingolipids delivered by outer membrane vesicles persist within mammalian immune cells and promote IL-10 secretion via the mevalonate pathway www.cell.com/cell-host-mi... @thexavierlab.bsky.social @cp-cellhostmicrobe.bsky.social

🚨New paper with @thexavierlab.bsky.social @science.org on the critical role of 🔄neuroimmune crosstalk in immune defense in the gut🪱🪱. 🧪@genelayinstitute.bsky.social @mgbresearch.bsky.social @harvardmed.bsky.social @broadinstitute.org www.science.org/doi/10.1126/...

Out now in @Science! We and the @kuchroolab.bsky.social described responses of enteric neurons to inflammatory cues during infection, showing that primary sensory neurons detect type 2 cytokines, balance neuropeptides, and influence site-specific immunity www.science.org/doi/10.1126/...

Dedicating our first Bluesky post to our junior scientists moving on to next exciting steps of their career! First on our list: huge congrats to Joanna Atwater, one of our amazing clinical research coordinators, on her next big step - pursuing a DMD at @tufts.edu Tufts School of Dental Medicine!