Prostaglandin E2 controls the metabolic adaptation of T cells to the intestinal microenvironment

Immune cells must adapt to different environments during the course of an immune response. We studied the adaptation of CD8+ T cells to the intestinal microenvironment and how this process shapes their residency in the gut. CD8+ T cells progressively remodel their transcriptome and surface phenotype as they acquire gut residency, and downregulate expression of mitochondrial genes. Human and mouse gut-resident CD8+ T cells have reduced mitochondrial mass, but maintain a viable energy balance to sustain their function. We found that the intestinal microenvironment is rich in prostaglandin E2 (PGE2), which drives mitochondrial depolarization in CD8+ T cells. Consequently, these cells engage autophagy to clear depolarized mitochondria, and enhance glutathione synthesis to scavenge reactive oxygen species (ROS) that result from mitochondrial depolarization. Impairing PGE2 sensing promotes CD8+ T cell accumulation in the gut, while tampering with autophagy and glutathione negatively impacts the T cell population. Thus, a PGE2-autophagy-glutathione axis defines the metabolic adaptation of CD8+ T cells to the intestinal microenvironment, to ultimately influence the T cell pool.

[1]  M. Veldhoen,et al.  Intestinal tissue-resident T cell activation depends on metabolite availability , 2022, Proceedings of the National Academy of Sciences of the United States of America.

[2]  Joerg M. Buescher,et al.  automRm: An R Package for Fully Automatic LC-QQQ-MS Data Preprocessing Powered by Machine Learning , 2022, Analytical chemistry.

[3]  B. Baradaran,et al.  Immune Checkpoint Inhibitors in Colorectal Cancer: Challenges and Future Prospects , 2021, Biomedicines.

[4]  Scott N. Mueller,et al.  Discrete tissue microenvironments instruct diversity in resident memory T cell function and plasticity , 2021, Nature Immunology.

[5]  E. Lavelle,et al.  Mucosal vaccines — fortifying the frontiers , 2021, Nature Reviews Immunology.

[6]  M. Neurath,et al.  E-type prostanoid receptor 4 drives resolution of intestinal inflammation by blocking epithelial necroptosis , 2021, Nature Cell Biology.

[7]  Xiaoyu Hu,et al.  Mitocytosis, a migrasome-mediated mitochondrial quality-control process , 2021, Cell.

[8]  T. Schumacher,et al.  Anti-inflammatory drugs remodel the tumor immune environment to enhance immune checkpoint blockade efficacy. , 2021, Cancer discovery.

[9]  A. Lamond,et al.  Tissue environment, not ontogeny, defines murine intestinal intraepithelial T lymphocytes , 2021, eLife.

[10]  L. Beura,et al.  Expansible residence decentralizes immune homeostasis , 2021, Nature.

[11]  I. Cleynen,et al.  Prostaglandin E2 receptor PTGER4-expressing macrophages promote intestinal epithelial barrier regeneration upon inflammation , 2021, Gut.

[12]  Joerg M. Buescher,et al.  Metabolic Dynamics of In Vitro CD8+ T Cell Activation , 2020, Metabolites.

[13]  M. V. Heiden,et al.  Cell Programmed Nutrient Partitioning in the Tumor Microenvironment , 2020, bioRxiv.

[14]  T. Schumacher,et al.  A committed tissue-resident memory T cell precursor within the circulating CD8+ effector T cell pool , 2020, The Journal of experimental medicine.

[15]  R. Maizels,et al.  Prostaglandin E2 promotes intestinal inflammation via inhibiting microbiota-dependent regulatory T cells , 2020, Science Advances.

[16]  John T. Chang,et al.  Heterogenous Populations of Tissue-Resident CD8+ T Cells Are Generated in Response to Infection and Malignancy. , 2020, Immunity.

[17]  J. Villadangos,et al.  Organ-specific isoform selection of fatty acid–binding proteins in tissue-resident lymphocytes , 2020, Science Immunology.

[18]  Christopher D. Scharer,et al.  Environmental cues regulate epigenetic reprogramming of airway-resident memory CD8+ T cells , 2020, Nature Immunology.

[19]  Leo Swadling,et al.  Human Liver Memory CD8+ T Cells Use Autophagy for Tissue Residence , 2020, Cell reports.

[20]  Daniel J. Gaffney,et al.  Loss of IL-10 signaling in macrophages limits bacterial killing driven by prostaglandin E2 , 2019, The Journal of experimental medicine.

[21]  B. Vincent,et al.  The Transcription Factor Bhlhe40 Programs Mitochondrial Regulation of Resident CD8+ T Cell Fitness and Functionality. , 2019, Immunity.

[22]  B. Vincent,et al.  The Transcription Factor Bhlhe40 Programs Mitochondrial Regulation of Resident CD8+ T Cell Fitness and Functionality. , 2020, Immunity.

[23]  D. Farber,et al.  Location, location, location: Tissue resident memory T cells in mice and humans , 2019, Science Immunology.

[24]  R. Satija,et al.  Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression , 2019, Genome Biology.

[25]  Dan B. Phung,et al.  Resident memory CD8 T cells persist for years in human small intestine , 2019, bioRxiv.

[26]  S. Narumiya,et al.  T cell–intrinsic prostaglandin E2-EP2/EP4 signaling is critical in pathogenic TH17 cell–driven inflammation , 2019, The Journal of allergy and clinical immunology.

[27]  S. C. Huang,et al.  Mitochondrial Membrane Potential Regulates Nuclear Gene Expression in Macrophages Exposed to Prostaglandin E2 , 2018, Immunity.

[28]  Fan Zhang,et al.  Fast, sensitive, and accurate integration of single cell data with Harmony , 2018, bioRxiv.

[29]  Christoph Hafemeister,et al.  Comprehensive integration of single cell data , 2018, bioRxiv.

[30]  Tingting Wang,et al.  Glutathione de novo synthesis but not recycling process coordinates with glutamine catabolism to control redox homeostasis and directs murine T cell differentiation , 2018, eLife.

[31]  Nektarios Tavernarakis,et al.  Mechanisms of mitophagy in cellular homeostasis, physiology and pathology , 2018, Nature Cell Biology.

[32]  M. Veldhoen,et al.  Mitochondria maintain controlled activation state of epithelial-resident T lymphocytes , 2018, Science Immunology.

[33]  Luke Zappia,et al.  Clustering trees: a visualization for evaluating clusterings at multiple resolutions , 2018, bioRxiv.

[34]  H. Snoeck,et al.  Dye-Independent Methods Reveal Elevated Mitochondrial Mass in Hematopoietic Stem Cells. , 2017, Cell stem cell.

[35]  Wei Wang,et al.  Runx3 programs CD8+ T cell residency in non-lymphoid tissues and tumors , 2017, Nature.

[36]  R. Youle,et al.  Mitochondrial fission facilitates the selective mitophagy of protein aggregates , 2017, The Journal of cell biology.

[37]  N. Restifo,et al.  Metabolic Regulation of T Cell Longevity and Function in Tumor Immunotherapy. , 2017, Cell metabolism.

[38]  Prashant Mishra,et al.  OPA1 Isoforms in the Hierarchical Organization of Mitochondrial Functions. , 2017, Cell reports.

[39]  Russell B. Fletcher,et al.  Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics , 2017, bioRxiv.

[40]  T. Mak,et al.  Glutathione Primes T Cell Metabolism for Inflammation , 2017, Immunity.

[41]  P. Puigserver,et al.  Survival of tissue-resident memory T cells requires exogenous lipid uptake and metabolism , 2017, Nature.

[42]  H. Miyoshi,et al.  Prostaglandin E2 promotes intestinal repair through an adaptive cellular response of the epithelium , 2017, The EMBO journal.

[43]  T. Saigusa,et al.  Mitochondrial division occurs concurrently with autophagosome formation but independently of Drp1 during mitophagy , 2016, The Journal of cell biology.

[44]  S. Campello,et al.  Macroautophagy inhibition maintains fragmented mitochondria to foster T cell receptor‐dependent apoptosis , 2016, The EMBO journal.

[45]  O. Kretz,et al.  Mitochondrial Dynamics Controls T Cell Fate through Metabolic Programming , 2016, Cell.

[46]  John Chilton,et al.  The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update , 2016, Nucleic Acids Res..

[47]  W. Shi,et al.  Hobit and Blimp1 instruct a universal transcriptional program of tissue residency in lymphocytes , 2016, Science.

[48]  Fidel Ramírez,et al.  deepTools2: a next generation web server for deep-sequencing data analysis , 2016, Nucleic Acids Res..

[49]  Y. Fujikawa,et al.  Mouse redox histology using genetically encoded probes , 2016, Science Signaling.

[50]  Q. Sattentau,et al.  The autophagy gene Atg16l1 differentially regulates Treg and TH2 cells to control intestinal inflammation , 2016, eLife.

[51]  D. Pellicci,et al.  T-box Transcription Factors Combine with the Cytokines TGF-β and IL-15 to Control Tissue-Resident Memory T Cell Fate. , 2015, Immunity.

[52]  R. Schreiber,et al.  Metabolic Competition in the Tumor Microenvironment Is a Driver of Cancer Progression , 2015, Cell.

[53]  Erik Sahai,et al.  Cyclooxygenase-Dependent Tumor Growth through Evasion of Immunity , 2015, Cell.

[54]  J. Locasale,et al.  Phosphoenolpyruvate Is a Metabolic Checkpoint of Anti-tumor T Cell Responses , 2015, Cell.

[55]  B. Igyártó,et al.  Quantifying Memory CD8 T Cells Reveals Regionalization of Immunosurveillance , 2015, Cell.

[56]  L. Scorrano,et al.  Mitochondrial fission and fusion factors reciprocally orchestrate mitophagic culling in mouse hearts and cultured fibroblasts. , 2015, Cell metabolism.

[57]  M. Abdellatif,et al.  Endogenous Drp1 Mediates Mitochondrial Autophagy and Protects the Heart Against Energy Stress , 2015, Circulation research.

[58]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[59]  P. Klenerman,et al.  Autophagy is a critical regulator of memory CD8+ T cell formation , 2014, eLife.

[60]  Koichi Araki,et al.  Autophagy is essential for effector CD8 T cell survival and memory formation , 2014, Nature Immunology.

[61]  Y. Belkaid,et al.  Role of the Microbiota in Immunity and Inflammation , 2014, Cell.

[62]  D. Barber,et al.  Intravascular staining for discrimination of vascular and tissue leukocytes , 2014, Nature Protocols.

[63]  Scott N. Mueller,et al.  The developmental pathway for CD103+CD8+ tissue-resident memory T cells of skin , 2013, Nature Immunology.

[64]  S. Jameson,et al.  Transcriptional downregulation of S1pr1 is required for establishment of resident memory CD8+ T cells , 2013, Nature Immunology.

[65]  E. Yang,et al.  Hypoxia-inducible factors enhance the effector responses of CD8+ T cells to persistent antigen , 2013, Nature Immunology.

[66]  A. Iwasaki,et al.  Tissue‐resident memory T cells , 2013, Immunological reviews.

[67]  Wei Shi,et al.  featureCounts: an efficient general purpose program for assigning sequence reads to genomic features , 2013, Bioinform..

[68]  P. Chambon,et al.  Homeostasis in Intestinal Epithelium Is Orchestrated by the Circadian Clock and Microbiota Cues Transduced by TLRs , 2013, Cell.

[69]  S. Narumiya,et al.  Prostaglandin E2 promotes Th1 differentiation via synergistic amplification of IL-12 signalling by cAMP and PI3-kinase , 2013, Nature Communications.

[70]  Thomas Gebhardt,et al.  Memory T cell subsets, migration patterns, and tissue residence. , 2013, Annual review of immunology.

[71]  J. McCaffery,et al.  Mouse lines with photo‐activatable mitochondria to study mitochondrial dynamics , 2012, Genesis.

[72]  Michael J. Bevan,et al.  CD8+ T Cells: Foot Soldiers of the Immune System , 2011, Immunity.

[73]  R. Morita,et al.  Prostaglandin E2 and SOCS1 have a role in intestinal immune tolerance , 2011, Nature communications.

[74]  D. Metcalfe,et al.  Prostaglandin E2 Activates and Utilizes mTORC2 as a Central Signaling Locus for the Regulation of Mast Cell Chemotaxis and Mediator Release* , 2010, The Journal of Biological Chemistry.

[75]  R. Webby,et al.  Dynamic T cell migration program provides resident memory within intestinal epithelium , 2010, The Journal of experimental medicine.

[76]  Matthew D. Young,et al.  Gene ontology analysis for RNA-seq: accounting for selection bias , 2010, Genome Biology.

[77]  M. Gutscher,et al.  Proximity-based Protein Thiol Oxidation by H2O2-scavenging Peroxidases*♦ , 2009, The Journal of Biological Chemistry.

[78]  Russell G. Jones,et al.  Enhancing CD8 T-cell memory by modulating fatty acid metabolism , 2009, Nature.

[79]  T. Mcclanahan,et al.  Prostaglandin E2 regulates Th17 cell differentiation and function through cyclic AMP and EP2/EP4 receptor signaling , 2009, The Journal of experimental medicine.

[80]  M. Seman,et al.  NAD+ and ATP Released from Injured Cells Induce P2X7-Dependent Shedding of CD62L and Externalization of Phosphatidylserine by Murine T Cells1 , 2009, The Journal of Immunology.

[81]  R. Locksley,et al.  Cytokine-secreting follicular T cells shape the antibody repertoire , 2009, Nature Immunology.

[82]  R. Youle,et al.  Parkin is recruited selectively to impaired mitochondria and promotes their autophagy , 2008, The Journal of cell biology.

[83]  E. Wherry,et al.  Cutting Edge: Gut Microenvironment Promotes Differentiation of a Unique Memory CD8 T Cell Population , 2006, The Journal of Immunology.

[84]  A. Ohta,et al.  The 'danger' sensors that STOP the immune response: the A2 adenosine receptors? , 2005, Trends in immunology.

[85]  Susan M. Kaech,et al.  Molecular and Functional Profiling of Memory CD8 T Cell Differentiation , 2002, Cell.

[86]  A. M. van der Bliek,et al.  Dynamin-related protein Drp1 is required for mitochondrial division in mammalian cells. , 2001, Molecular biology of the cell.

[87]  T. Chiba,et al.  Cellular localization of mRNAs for prostaglandin E receptor subtypes in mouse gastrointestinal tract. , 1997, The American journal of physiology.

[88]  S. Jeurissen,et al.  Lymphocyte migration into the lamina propria of the gut is mediated by specialized HEV-like blood vessels. , 1987, Immunology.

[89]  Thomas R. Gingeras,et al.  STAR: ultrafast universal RNA-seq aligner , 2013, Bioinform..

[90]  H. Wiig,et al.  Isolation of interstitial fluid from rat mammary tumors by a centrifugation method. , 2003, American journal of physiology. Heart and circulatory physiology.