Identification of regulators of the innate immune response to cytosolic DNA and retroviral infection by an integrative approach (original) (raw)
Barbalat, R., Ewald, S.E., Mouchess, M.L. & Barton, G.M. Nucleic acid recognition by the innate immune system. Annu. Rev. Immunol.29, 185–214 (2011). CASPubMed Google Scholar
Altfeld, M., Fadda, L., Frleta, D. & Bhardwaj, N. DCs and NK cells: critical effectors in the immune response to HIV-1. Nat. Rev. Immunol.11, 176–186 (2011). CASPubMedPubMed Central Google Scholar
Yan, N., Regalado-Magdos, A.D., Stiggelbout, B., Lee-Kirsch, M.A. & Lieberman, J. The cytosolic exonuclease TREX1 inhibits the innate immune response to human immunodeficiency virus type 1. Nat. Immunol.11, 1005–1013 (2010). ArticleCASPubMedPubMed Central Google Scholar
Stetson, D.B., Ko, J.S., Heidmann, T. & Medzhitov, R. Trex1 prevents cell-intrinsic initiation of autoimmunity. Cell134, 587–598 (2008). CASPubMedPubMed Central Google Scholar
Gall, A. et al. Autoimmunity initiates in nonhematopoietic cells and progresses via lymphocytes in an interferon-dependent autoimmune disease. Immunity36, 120–131 (2012). CASPubMedPubMed Central Google Scholar
Lee-Kirsch, M.A. et al. Mutations in the gene encoding the 3′-5′ DNA exonuclease TREX1 are associated with systemic lupus erythematosus. Nat. Genet.39, 1065–1067 (2007). CASPubMed Google Scholar
Lee-Kirsch, M.A. et al. A mutation in TREX1 that impairs susceptibility to granzyme A-mediated cell death underlies familial chilblain lupus. J. Mol. Med. (Berl.)85, 531–537 (2007). CAS Google Scholar
Rotem, Z., Cox, R.A. & Isaacs, A. Inhibition of virus multiplication by foreign nucleic acid. Nature197, 564–566 (1963). CASPubMed Google Scholar
Chiu, Y.H., Macmillan, J.B. & Chen, Z.J. RNA polymerase III detects cytosolic DNA and induces type I interferons through the RIG-I pathway. Cell138, 576–591 (2009). CASPubMedPubMed Central Google Scholar
Ablasser, A. et al. RIG-I-dependent sensing of poly(dA:dT) through the induction of an RNA polymerase III-transcribed RNA intermediate. Nat. Immunol.10, 1065–1072 (2009). CASPubMed Google Scholar
Yoneyama, M. et al. The RNA helicase RIG-I has an essential function in double-stranded RNA-induced innate antiviral responses. Nat. Immunol.5, 730–737 (2004). CASPubMed Google Scholar
Stetson, D.B. & Medzhitov, R. Recognition of cytosolic DNA activates an IRF3-dependent innate immune response. Immunity24, 93–103 (2006). CASPubMed Google Scholar
Ishii, K.J. et al. A Toll-like receptor-independent antiviral response induced by double-stranded B-form DNA. Nat. Immunol.7, 40–48 (2006). CASPubMed Google Scholar
Ishikawa, H. & Barber, G.N. STING is an endoplasmic reticulum adaptor that facilitates innate immune signalling. Nature455, 674–678 (2008). CASPubMedPubMed Central Google Scholar
Ishikawa, H., Ma, Z. & Barber, G.N. STING regulates intracellular DNA-mediated, type I interferon-dependent innate immunity. Nature461, 788–792 (2009). CASPubMedPubMed Central Google Scholar
Tanaka, Y. & Chen, Z.J. STING specifies IRF3 phosphorylation by TBK1 in the cytosolic DNA signaling pathway. Sci. Signal.5, ra20 (2012). PubMedPubMed Central Google Scholar
Unterholzner, L. et al. IFI16 is an innate immune sensor for intracellular DNA. Nat. Immunol.11, 997–1004 (2010). CASPubMedPubMed Central Google Scholar
Yanai, H. et al. HMGB proteins function as universal sentinels for nucleic-acid-mediated innate immune responses. Nature462, 99–103 (2009). CASPubMed Google Scholar
Li, S., Wang, L., Berman, M., Kong, Y.Y. & Dorf, M.E. Mapping a dynamic innate immunity protein interaction network regulating type I interferon production. Immunity35, 426–440 (2011). CASPubMedPubMed Central Google Scholar
Tsuchida, T. et al. The ubiquitin ligase TRIM56 regulates innate immune responses to intracellular double-stranded DNA. Immunity33, 765–776 (2010). CASPubMed Google Scholar
Nijman, S.M. et al. A genomic and functional inventory of deubiquitinating enzymes. Cell123, 773–786 (2005). CASPubMed Google Scholar
Ong, S.E. et al. Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell. Proteomics1, 376–386 (2002). CASPubMed Google Scholar
Roberts, T.L. et al. HIN-200 proteins regulate caspase activation in response to foreign cytoplasmic DNA. Science323, 1057–1060 (2009). CASPubMed Google Scholar
Yan, N., Cherepanov, P., Daigle, J.E., Engelman, A. & Lieberman, J. The SET complex acts as a barrier to autointegration of HIV-1. PLoS Pathog.5, e1000327 (2009). PubMedPubMed Central Google Scholar
Crow, Y.J. et al. Mutations in the gene encoding the 3′-5′ DNA exonuclease TREX1 cause Aicardi-Goutieres syndrome at the AGS1 locus. Nat. Genet.38, 917–920 (2006). CASPubMed Google Scholar
Rice, G.I. et al. Mutations involved in Aicardi-Goutières syndrome implicate SAMHD1 as regulator of the innate immune response. Nat. Genet.41, 829–832 (2009). CASPubMedPubMed Central Google Scholar
Laguette, N. & Benkirane, M. How SAMHD1 changes our view of viral restriction. Trends Immunol.33, 26–33 (2012). CASPubMed Google Scholar
Okabe, Y., Sano, T. & Nagata, S. Regulation of the innate immune response by threonine-phosphatase of Eyes absent. Nature460, 520–524 (2009). CASPubMed Google Scholar
Paytubi, S. et al. ABC50 promotes translation initiation in mammalian cells. J. Biol. Chem.284, 24061–24073 (2009). CASPubMedPubMed Central Google Scholar
Rozenblatt-Rosen, O. et al. Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins. Nature487, 491–495 (2012). CASPubMedPubMed Central Google Scholar
Zhang, T. et al. A novel Hsp90 inhibitor to disrupt Hsp90/Cdc37 complex against pancreatic cancer cells. Mol. Cancer Ther.7, 162–170 (2008). CASPubMed Google Scholar
Gray, P.J. Jr., Prince, T., Cheng, J., Stevenson, M.A. & Calderwood, S.K. Targeting the oncogene and kinome chaperone CDC37. Nat. Rev. Cancer8, 491–495 (2008). CASPubMedPubMed Central Google Scholar
Bouwmeester, T. et al. A physical and functional map of the human TNF-alpha/NF-kappa B signal transduction pathway. Nat. Cell Biol.6, 97–105 (2004). CASPubMed Google Scholar
Myers, M.P. et al. TYK2 and JAK2 are substrates of protein-tyrosine phosphatase 1B. J. Biol. Chem.276, 47771–47774 (2001). CASPubMed Google Scholar
Chowdhury, D. & Lieberman, J. Death by a thousand cuts: granzyme pathways of programmed cell death. Annu. Rev. Immunol.26, 389–420 (2008). CASPubMedPubMed Central Google Scholar
Yang, Y.G., Lindahl, T. & Barnes, D.E. Trex1 exonuclease degrades ssDNA to prevent chronic checkpoint activation and autoimmune disease. Cell131, 873–886 (2007). CASPubMed Google Scholar
Yan, N., O′Day, E., Wheeler, L.A., Engelman, A. & Lieberman, J. HIV DNA is heavily uracilated, which protects it from autointegration. Proc. Natl. Acad. Sci. USA108, 9244–9249 (2011). CASPubMedPubMed Central Google Scholar
Ishii, K.J. et al. TANK-binding kinase-1 delineates innate and adaptive immune responses to DNA vaccines. Nature451, 725–729 (2008). CASPubMed Google Scholar
Shimp, S.K. III et al. HSP90 inhibition by 17-DMAG reduces inflammation in J774 macrophages through suppression of Akt and nuclear factor-kappaB pathways. Inflamm. Res.61, 521–533 (2012). CASPubMed Google Scholar
Corson, T.W. & Crews, C.M. Molecular understanding and modern application of traditional medicines: triumphs and trials. Cell130, 769–774 (2007). CASPubMedPubMed Central Google Scholar
Klaman, L.D. et al. Increased energy expenditure, decreased adiposity, and tissue-specific insulin sensitivity in protein-tyrosine phosphatase 1B-deficient mice. Mol. Cell. Biol.20, 5479–5489 (2000). CASPubMedPubMed Central Google Scholar
Amit, I. et al. Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses. Science326, 257–263 (2009). CASPubMedPubMed Central Google Scholar
Samaniego, L.A., Neiderhiser, L. & DeLuca, N.A. Persistence and expression of the herpes simplex virus genome in the absence of immediate-early proteins. J. Virol.72, 3307–3320 (1998). CASPubMedPubMed Central Google Scholar
Hornung, V. et al. 5′-Triphosphate RNA is the ligand for RIG-I. Science314, 994–997 (2006). PubMed Google Scholar
Moffat, J. et al. A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell124, 1283–1298 (2006). CASPubMed Google Scholar
Burckstummer, T. et al. An orthogonal proteomic-genomic screen identifies AIM2 as a cytoplasmic DNA sensor for the inflammasome. Nat. Immunol.10, 266–272 (2009). PubMed Google Scholar
Pichlmair, A. et al. Viral immune modulators perturb the human molecular network by common and unique strategies. Nature487, 486–490 (2012). CASPubMed Google Scholar
Cristea, I.M. et al. Human cytomegalovirus pUL83 stimulates activity of the viral immediate-early promoter through its interaction with the cellular IFI16 protein. J. Virol.84, 7803–7814 (2010). CASPubMedPubMed Central Google Scholar