IRF3 inhibits IFN‐γ‐mediated restriction of intracellular pathogens in macrophages independently of IFNAR

Macrophages use an array of innate immune sensors to detect intracellular pathogens and to tailor effective antimicrobial responses. In addition, extrinsic activation with the cytokine IFN‐γ is often required as well to tip the scales of the host‐pathogen balance toward pathogen restriction. However, little is known about how host‐pathogen sensing impacts the antimicrobial IFN‐γ‐activated state. It was observed that in the absence of IRF3, a key downstream component of pathogen sensing pathways, IFN‐γ‐primed macrophages more efficiently restricted the intracellular bacterium Legionella pneumophila and the intracellular protozoan parasite Trypanosoma cruzi. This effect did not require IFNAR, the receptor for Type I IFNs known to be induced by IRF3, nor the sensing adaptors MyD88/TRIF, MAVS, or STING. This effect also did not involve differential activation of STAT1, the major signaling protein downstream of both Type 1 and Type 2 IFN receptors. IRF3‐deficient macrophages displayed a significantly altered IFN‐γ‐induced gene expression program, with up‐regulation of microbial restriction factors such as Nos2. Finally, we found that IFN‐γ‐primed but not unprimed macrophages largely excluded the activated form of IRF3 from the nucleus following bacterial infection. These data are consistent with a relationship of mutual inhibition between IRF3 and IFN‐γ‐activated programs, possibly as a component of a partially reversible mechanism for modulating the activity of potent innate immune effectors (such as Nos2) in the context of intracellular infection.

[1]  Jordan V. Price,et al.  IRG1 and Inducible Nitric Oxide Synthase Act Redundantly with Other Interferon-Gamma-Induced Factors To Restrict Intracellular Replication of Legionella pneumophila , 2019, mBio.

[2]  Arthur S Slutsky,et al.  Pulmonary phagocyte-derived NPY controls the pathology of severe influenza virus infection , 2018, Nature Microbiology.

[3]  S. Gordon,et al.  Tissue macrophages: heterogeneity and functions , 2017, BMC Biology.

[4]  H. Tilg,et al.  Lipocalin-2: A Master Mediator of Intestinal and Metabolic Inflammation , 2017, Trends in Endocrinology & Metabolism.

[5]  G. Sen,et al.  RIG-I-like receptor-induced IRF3 mediated pathway of apoptosis (RIPA): a new antiviral pathway , 2016, Protein & Cell.

[6]  D. Zamboni,et al.  Caspase-1 but Not Caspase-11 Is Required for NLRC4-Mediated Pyroptosis and Restriction of Infection by Flagellated Legionella Species in Mouse Macrophages and In Vivo , 2015, The Journal of Immunology.

[7]  S. Barik,et al.  Induction of Interferon-Stimulated Genes by IRF3 Promotes Replication of Toxoplasma gondii , 2015, PLoS pathogens.

[8]  C. Bogdan Nitric oxide synthase in innate and adaptive immunity: an update. , 2015, Trends in immunology.

[9]  U. Schaible,et al.  Macrophage defense mechanisms against intracellular bacteria , 2015, Immunological reviews.

[10]  J. Casanova,et al.  Mendelian susceptibility to mycobacterial disease: genetic, immunological, and clinical features of inborn errors of IFN-γ immunity. , 2014, Seminars in immunology.

[11]  Anna R Martirosyan,et al.  Type I IFN Induces IL-10 Production in an IL-27–Independent Manner and Blocks Responsiveness to IFN-γ for Production of IL-12 and Bacterial Killing in Mycobacterium tuberculosis–Infected Macrophages , 2014, The Journal of Immunology.

[12]  G. Weiss,et al.  Iron at the interface of immunity and infection , 2014, Front. Pharmacol..

[13]  Masahiro Yamamoto,et al.  Guanylate binding proteins promote caspase-11–dependent pyroptosis in response to cytoplasmic LPS , 2014, Proceedings of the National Academy of Sciences.

[14]  Ke Chen,et al.  Interferon regulatory factor 3 constrains IKKβ/NF‐κB signaling to alleviate hepatic steatosis and insulin resistance , 2014, Hepatology.

[15]  M. Jefferson,et al.  The Pestivirus N Terminal Protease Npro Redistributes to Mitochondria and Peroxisomes Suggesting New Sites for Regulation of IRF3 by Npro , 2014, PloS one.

[16]  Sunny Shin,et al.  Inflammasome-mediated cell death in response to bacterial pathogens that access the host cell cytosol: lessons from legionella pneumophila , 2013, Front. Cell. Infect. Microbiol..

[17]  Schraga Schwartz,et al.  High-Resolution Mapping Reveals a Conserved, Widespread, Dynamic mRNA Methylation Program in Yeast Meiosis , 2013, Cell.

[18]  Eugenia G. Giannopoulou,et al.  Synergistic activation of inflammatory cytokine genes by interferon-γ-induced chromatin remodeling and toll-like receptor signaling. , 2013, Immunity.

[19]  O. Leo,et al.  Interferon regulatory factor 3 controls interleukin-17 expression in CD8 T lymphocytes , 2013, Proceedings of the National Academy of Sciences.

[20]  M. Muckenthaler,et al.  Nitric oxide–mediated regulation of ferroportin-1 controls macrophage iron homeostasis and immune function in Salmonella infection , 2013, The Journal of experimental medicine.

[21]  T. Graeber,et al.  Type I Interferon Suppresses Type II Interferon–Triggered Human Anti-Mycobacterial Responses , 2013, Science.

[22]  L. Lenz,et al.  Differential effects of type I and II interferons on myeloid cells and resistance to intracellular bacterial infections , 2013, Immunologic research.

[23]  J. Alcorn,et al.  Lipocalin 2 Regulates Inflammation during Pulmonary Mycobacterial Infections , 2012, PloS one.

[24]  M. Starnbach,et al.  IFNγ Inhibits the Cytosolic Replication of Shigella flexneri via the Cytoplasmic RNA Sensor RIG-I , 2012, PLoS pathogens.

[25]  F. Shao,et al.  Preventing bacterial DNA release and absent in melanoma 2 inflammasome activation by a Legionella effector functioning in membrane trafficking , 2012, Proceedings of the National Academy of Sciences.

[26]  R. Myers,et al.  IκB kinase ε (IKKε) regulates the balance between type I and type II interferon responses , 2011, Proceedings of the National Academy of Sciences.

[27]  Sunny Shin,et al.  Dissection of a type I interferon pathway in controlling bacterial intracellular infection in mice , 2011, Cellular microbiology.

[28]  Colin N. Dewey,et al.  RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome , 2011, BMC Bioinformatics.

[29]  Kevin A. Robertson,et al.  Reversible Inhibition of Murine Cytomegalovirus Replication by Gamma Interferon (IFN-γ) in Primary Macrophages Involves a Primed Type I IFN-Signaling Subnetwork for Full Establishment of an Immediate-Early Antiviral State , 2011, Journal of Virology.

[30]  A. Da'dara,et al.  Type I Interferons Increase Host Susceptibility to Trypanosoma cruzi Infection , 2011, Infection and Immunity.

[31]  D. Zamboni,et al.  Innate Immunity to Legionella Pneumophila , 2011, Front. Microbio..

[32]  D. Levy,et al.  Functional Crosstalk between Type I and II Interferon through the Regulated Expression of STAT1 , 2010, PLoS biology.

[33]  M. Robinson,et al.  A scaling normalization method for differential expression analysis of RNA-seq data , 2010, Genome Biology.

[34]  L. Lenz,et al.  The Journal of Experimental Medicine CORRESPONDENCE , 2005 .

[35]  S. Taki Faculty Opinions recommendation of Induction of IFN-alphabeta enables Listeria monocytogenes to suppress macrophage activation by IFN-gamma. , 2010 .

[36]  H. Nahrevanian Involvement of nitric oxide and its up/down stream molecules in the immunity against parasitic infections. , 2009, The Brazilian journal of infectious diseases : an official publication of the Brazilian Society of Infectious Diseases.

[37]  C. Hong,et al.  Selective modulation of TLR4-activated inflammatory responses by altered iron homeostasis in mice. , 2009, The Journal of clinical investigation.

[38]  R. Vance,et al.  Identification of Host Cytosolic Sensors and Bacterial Factors Regulating the Type I Interferon Response to Legionella pneumophila , 2009, PLoS pathogens.

[39]  Zhijian J. Chen,et al.  RNA Polymerase III Detects Cytosolic DNA and Induces Type I Interferons through the RIG-I Pathway , 2009, Cell.

[40]  T. Taniguchi,et al.  Cell type-dependent proapoptotic role of Bcl2L12 revealed by a mutation concomitant with the disruption of the juxtaposed Irf3 gene , 2009, Proceedings of the National Academy of Sciences.

[41]  S. Baratchi,et al.  Recent advances on the roles of NO in cancer and chronic inflammatory disorders. , 2009, Current medicinal chemistry.

[42]  H. Changotra,et al.  Type I and Type II Interferons Inhibit the Translation of Murine Norovirus Proteins , 2009, Journal of Virology.

[43]  R. Flavell,et al.  Multiple MyD88‐dependent responses contribute to pulmonary clearance of Legionella pneumophila , 2009, Cellular microbiology.

[44]  Xiaoyu Hu,et al.  Regulation of interferon and Toll‐like receptor signaling during macrophage activation by opposing feedforward and feedback inhibition mechanisms , 2008, Immunological reviews.

[45]  David E Levy,et al.  IFNgamma signaling-does it mean JAK-STAT? , 2008, Cytokine & growth factor reviews.

[46]  C. Schiffer,et al.  Contribution of Ser386 and Ser396 to activation of interferon regulatory factor 3. , 2008, Journal of molecular biology.

[47]  Roger E Bumgarner,et al.  Independent and Cooperative Antiviral Actions of Beta Interferon and Gamma Interferon against Herpes Simplex Virus Replication in Primary Human Fibroblasts , 2007, Journal of Virology.

[48]  Hiroyuki Oshiumi,et al.  Spatiotemporal Mobilization of Toll/IL-1 Receptor Domain-Containing Adaptor Molecule-1 in Response to dsRNA1 , 2007, The Journal of Immunology.

[49]  W. Dietrich,et al.  Restriction of Legionella pneumophila growth in macrophages requires the concerted action of cytokine and Naip5/Ipaf signalling pathways , 2007, Cellular microbiology.

[50]  K. Heuner,et al.  Interferon‐Gamma Reverses the Evasion of Birc1e/Naip5 Gene Mediated Murine Macrophage Immunity by Legionella pneumophila Mutant Lacking Flagellin , 2007, Microbiology and immunology.

[51]  Ryan M. O’Connell,et al.  A role for IRF3-dependent RXRα repression in hepatotoxicity associated with viral infections , 2006, The Journal of experimental medicine.

[52]  Kate Schroder,et al.  Signal integration between IFNgamma and TLR signalling pathways in macrophages. , 2006, Immunobiology.

[53]  Jiang-xia Liu,et al.  Hyper-activated IRF-1 and STAT1 contribute to enhanced Interferon stimulated gene (ISG) expression by Interferon α and γ co-treatment in human hepatoma cells , 2006, Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression.

[54]  Takuma Tsukahara,et al.  Differential gene induction by type I and type II interferons and their combination. , 2006, Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research.

[55]  M. Swanson,et al.  Cytosolic recognition of flagellin by mouse macrophages restricts Legionella pneumophila infection , 2006, The Journal of experimental medicine.

[56]  Anne E Carpenter,et al.  A Lentiviral RNAi Library for Human and Mouse Genes Applied to an Arrayed Viral High-Content Screen , 2006, Cell.

[57]  W. Dietrich,et al.  Flagellin-Deficient Legionella Mutants Evade Caspase-1- and Naip5-Mediated Macrophage Immunity , 2006, PLoS pathogens.

[58]  Milton W. Taylor,et al.  Global transcriptional profiling demonstrates the combination of type I and type II interferon enhances antiviral and immune responses at clinically relevant doses. , 2005, Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research.

[59]  T. Decker,et al.  The Yin and Yang of type I interferon activity in bacterial infection , 2005, Nature Reviews Immunology.

[60]  S. Akira,et al.  Differential Roles of Toll-Like Receptors 2 and 4 in In Vitro Responses of Macrophages to Legionella pneumophila , 2005, Infection and Immunity.

[61]  R. Isberg,et al.  Macrophages from Mice with the Restrictive Lgn1 Allele Exhibit Multifactorial Resistance to Legionella pneumophila , 2004, Infection and Immunity.

[62]  F. Fang Antimicrobial reactive oxygen and nitrogen species: concepts and controversies , 2004, Nature Reviews Microbiology.

[63]  A. Abadie,et al.  Type I interferon and TNFα cooperate with type II interferon for TRAIL induction and triggering of apoptosis in SK-N-MC EWING tumor cells , 2004, Oncogene.

[64]  T. Maniatis,et al.  IFN-regulatory factor 3-dependent gene expression is defective in Tbk1-deficient mouse embryonic fibroblasts , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[65]  M. Hensel,et al.  Inducible nitric oxide synthase and control of intracellular bacterial pathogens. , 2003, Microbes and infection.

[66]  T. Maniatis,et al.  IKKε and TBK1 are essential components of the IRF3 signaling pathway , 2003, Nature Immunology.

[67]  J. Hiscott,et al.  Identification of the Minimal Phosphoacceptor Site Required for in Vivo Activation of Interferon Regulatory Factor 3 in Response to Virus and Double-stranded RNA* , 2003, The Journal of Biological Chemistry.

[68]  D. Creely,et al.  IKK-i and TBK-1 are Enzymatically Distinct from the Homologous Enzyme IKK-2 , 2002, The Journal of Biological Chemistry.

[69]  S. Akira,et al.  Lipopolysaccharide Stimulates the MyD88-Independent Pathway and Results in Activation of IFN-Regulatory Factor 3 and the Expression of a Subset of Lipopolysaccharide-Inducible Genes1 , 2001, The Journal of Immunology.

[70]  G. Stark,et al.  Roles of Phosphatidylinositol 3-Kinase in Interferon-γ-dependent Phosphorylation of STAT1 on Serine 727 and Activation of Gene Expression* , 2001, The Journal of Biological Chemistry.

[71]  V. Bach,et al.  Induction of iNOS in human monocytes infected with different Legionella species. , 2001, FEMS microbiology letters.

[72]  T. Taniguchi,et al.  Cross talk between interferon-gamma and -alpha/beta signaling components in caveolar membrane domains. , 2000, Science.

[73]  D. Hume,et al.  IFN-gamma primes macrophage responses to bacterial DNA. , 1998, Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research.

[74]  T. Decker,et al.  GAS elements: a few nucleotides with a major impact on cytokine-induced gene expression. , 1997, Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research.

[75]  J. Brieland,et al.  Effector mechanisms responsible for gamma interferon-mediated host resistance to Legionella pneumophila lung infection: the role of endogenous nitric oxide differs in susceptible and resistant murine hosts , 1996, Infection and immunity.

[76]  H. Murray Current and future clinical applications of interferon-gamma in host antimicrobial defense , 1996, Intensive Care Medicine.

[77]  J. Aliberti,et al.  Tumor necrosis factor alpha mediates resistance to Trypanosoma cruzi infection in mice by inducing nitric oxide production in infected gamma interferon-activated macrophages , 1995, Infection and immunity.

[78]  C. Newton,et al.  Inhibition of Legionella pneumophila growth by gamma interferon in permissive A/J mouse macrophages: role of reactive oxygen species, nitric oxide, tryptophan, and iron(III) , 1994, Infection and immunity.

[79]  A. Sher,et al.  The microbicidal activity of interferon‐γ‐treated macrophages against Trypanosoma cruzi involves an L‐arginine‐dependent, nitrogen oxide‐mediated mechanism inhibitable by interleukin‐10 and transforming growth factor‐β , 1992, European journal of immunology.

[80]  M. Fresno,et al.  Synergism between tumor necrosis factor‐α and interferon‐γ on macrophage activation for the killing of intracellular Trypanosoma cruzi through a nitric oxide‐dependent mechanism , 1992 .

[81]  C. Nathan,et al.  Agonist and antagonist effects of interferon alpha and beta on activation of human macrophages. Two classes of interferon gamma receptors and blockade of the high-affinity sites by interferon alpha or beta , 1988, The Journal of experimental medicine.

[82]  R. Germain,et al.  Induction of macrophage Ia antigen expression by rIFN-gamma and down-regulation by IFN-alpha/beta and dexamethasone are mediated by changes in steady-state levels of Ia mRNA. , 1987, Journal of immunology.

[83]  B. Zingales,et al.  Cell surface antigens of Trypanosoma cruzi: possible correlation with the interiorization process in mammalian cells. , 1982, Molecular and biochemical parasitology.

[84]  W. Kaiser,et al.  Receptor-Interacting Protein Homotypic Interaction Motif-Dependent Control of NF- B Activation via the DNA-Dependent Activator of IFN Regulatory Factors , 2008 .

[85]  R. Medzhitov,et al.  Recognition of cytosolic DNA activates an IRF3-dependent innate immune response. , 2006, Immunity.

[86]  C. Nathan,et al.  Nitric oxide and macrophage function. , 1997, Annual review of immunology.

[87]  M. Fresno,et al.  Synergism between tumor necrosis factor-alpha and interferon-gamma on macrophage activation for the killing of intracellular Trypanosoma cruzi through a nitric oxide-dependent mechanism. , 1992, European journal of immunology.