Check out their findings from paired mother/infant microbiome & disease-specific metagenomic datasets! rdcu.be/eRVYz (2/2)

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...

Regional encoding of enteric nervous system responses to microbiota and type 2 inflammation Enteric neurons are essential regulators of intestinal physiology, yet their responses to varying microbial and immune environments along the intestinal tract and or during challenges remain poorly un...

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/...

Congrats to the authors!

@broadinstitute.org
@mgbresearch.bsky.social

Human immunodeficiency virus and antiretroviral therapies exert distinct influences across diverse gut microbiomes - Nature Microbiology Metagenomic analysis of the gut microbiome of people with human immunodeficiency virus (HIV), from three distinct cohorts, revealed infection- and antiretroviral drug-linked alterations, which may con...

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

Unusual Phospholipids from Morganella morganii Linked to Depression A multifactorial association study detected a probable causal connection between the prevalence of Morganella morganii in the gut microbiome and the incidence of major depressive disorder (MDD) in the...

Our findings offer a new target that could be useful for diagnosing or treating certain cases of depressive disorder. They also provide a roadmap for probing how other members of the gut microbiome influence human health and behavior.

Harvard Medical School 2025 State of the School Address In the 2025 State of the School Address, Dean George Q. Daley described the challenges and opportunities ahead for Harvard Medical School and academic research.

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/

@broadinstitute.org
@mgbresearch.bsky.social

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/...

@mgbresearch.bsky.social
@broadinstitute.org

Autoimmune disease risk gene ANKRD55 promotes TH17 effector function through metabolic modulation The ANKRD55 locus has been associated with multiple autoimmune diseases. Using murine models of inflammation, Xu et al. demonstrate an important role of th

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

Elucidating the role of Campylobacter concisus–derived indole metabolites in gut inflammation and immune modulation | PNAS The gut microbiota plays a pivotal role in maintaining human health with dysbiosis linked to a variety of diseases. Metagenome sequencing and robus...

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

️ 92: Genetic Loss of CFHR5 Function Protects Against Age-Related Macular Degeneration ️ Episode 92: Genetic Loss of CFHR5 Function Protects Against Age-Related Macular Degeneration In this episode of PaperCast Base by Base, we explore a genome‑wide association and fine‑mapping study in...

🎧 basebybase.castos.com/episodes/92-...

📄 nature.com/articles/s41...

️ 92: Genetic Loss of CFHR5 Function Protects Against Age-Related Macular Degeneration ️ Episode 92: Genetic Loss of CFHR5 Function Protects Against Age-Related Macular Degeneration In this episode of PaperCast Base by Base, we explore a genome‑wide association and fine‑mapping study in...

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

<em>Immunology & Cell Biology</em> | ASI Journal | Wiley Online Library In this article, we have analyzed the serum proteome and metabolome in inflammatory bowel disease patients being treated with the anti-α4β7 integrin therapeutic agent vedolizumab. The pretreatment bi...

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/...

Eggerthella lenta Produces a Cryptic Pro-inflammatory Lipid Eggerthella lenta is both one of the most studied and least understood members of the human gut microbiome. Most of the interest in this Gram-positive anaerobe originates from multiple robust associations of its population with a variety of autoimmune diseases, perhaps most notably inflammatory bowel disease (IBD). The links between bacteria and inflammation are only partially known. Inflammation is driven by Th17 cells and their inflammatory cytokine IL-17, and the population of these cells is promoted by a transcription factor, RORγt. Bacterial metabolites appear to activate RORγt in a cell- and antigen-independent fashion, but the metabolites and their activating mechanism are unknown. This report describes an assay-driven search for pro-inflammatory metabolites from E. lenta that revealed a plasmalogen-triggered plasmalogen pair that forms a single molecule signal transduction device. Small electrophiles characteristic of inflammatory environments react with the plasmalogen’s sensitive vinyl ether moiety to create a lipid signal, a lysoglycoglycerolipid that upregulates the inflammatory cytokines TNF-α and IL-6 through a TLR receptor. This provides a molecular mechanism that allows E. lenta to upregulate inflammatory responses in a cell- and antigen-independent fashion. This molecular mechanism is similar to an endogenous signaling system that upregulates RORγt through a triggered mammalian plasmalogen signal, 1–18:0-lysophosphatidylethanolamine.

This finding suggests that molecular patterns could be more useful categories for microbiome-driven immune regulation than taxonomy. (2/2)

Read the study in JACS – pubs.acs.org/doi/10.1021/...

@broadinstitute.org
@mgbresearch.bsky.social

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)

...and maps expression of genetic risk variants onto intestinal biogeography. Read the results of this exciting collaboration!

@broadinstitute.org @mgbresearch.bsky.social @genelayinstitute.bsky.social

Single-cell and spatial transcriptomics of stricturing Crohn’s disease highlights a fibrosis-associated network - Nature Genetics Single-cell and spatial transcriptomics analysis of stricturing Crohn’s disease highlights cellular heterogeneity in fibrotic tissue and identifies neighborhoods of fibroblasts and immune cells contri...

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...

@broadinstitute.org @mgbresearch.bsky.social @genelayinstitute.bsky.social

(6/6)

(5/6) This suggests that OMV-like nanoparticles could one day be used to deliver vaccines or therapeutics to immune cells! We’re thrilled to have this paper out in the world. Congratulations to co-first authors Eric Brown and Emily Temple on this important work!

(4/6) These findings are exciting for a few reasons. Not only do they clarify the mechanism of a microbiome-host interaction that is important in inflammatory disease, they add to the mounting evidence that OMVs can be an effective vehicle for immunomodulatory signaling.