1. AkiraS, UematsuS, TakeuchiO (2006) Pathogen recognition and innate immunity. Cell 124: 783–801.
2. JanewayCAJr (1989) Approaching the asymptote? Evolution and revolution in immunology. Cold Spring Harb Symp Quant Biol 54 Pt 1: 1–13.
3. MedzhitovR, JanewayCAJr (2002) Decoding the patterns of self and nonself by the innate immune system. Science 296: 298–300.
4. VanceRE, IsbergRR, PortnoyDA (2009) Patterns of pathogenesis: discrimination of pathogenic and nonpathogenic microbes by the innate immune system. Cell Host Microbe 6: 10–21.
5. SantaolallaR, FukataM, AbreuMT (2011) Innate immunity in the small intestine. Curr Opin Gastroenterol 27: 125–131.
6. RockKL, LaiJJ, KonoH (2011) Innate and adaptive immune responses to cell death. Immunol Rev 243: 191–205.
7. ChenGY, NunezG (2010) Sterile inflammation: sensing and reacting to damage. Nat Rev Immunol 10: 826–837.
8. CemmaM, BrumellJH (2012) Interactions of pathogenic bacteria with autophagy systems. Curr Biol 22: R540–545.
9. KumarY, ValdiviaRH (2009) Leading a sheltered life: intracellular pathogens and maintenance of vacuolar compartments. Cell Host Microbe 5: 593–601.
10. DereticV (2012) Autophagy as an innate immunity paradigm: expanding the scope and repertoire of pattern recognition receptors. Curr Opin Immunol 24: 21–31.
11. StuartLM, EzekowitzRA (2005) Phagocytosis: elegant complexity. Immunity 22: 539–550.
12. SumpterRJr, LevineB (2010) Autophagy and innate immunity: triggering, targeting and tuning. Semin Cell Dev Biol 21: 699–711.
13. MacMickingJD (2012) Interferon-inducible effector mechanisms in cell-autonomous immunity. Nat Rev Immunol 12: 367–382.
14. KomanderD, RapeM (2012) The ubiquitin code. Annu Rev Biochem 81: 203–229.
15. PerrinAJ, JiangX, BirminghamCL, SoNS, BrumellJH (2004) Recognition of bacteria in the cytosol of mammalian cells by the ubiquitin system. Curr Biol 14: 806–811.
16. HuettA, HeathRJ, BegunJ, SassiSO, BaxtLA, et al. (2012) The LRR and RING domain protein LRSAM1 is an E3 ligase crucial for ubiquitin-dependent autophagy of intracellular Salmonella Typhimurium. Cell Host Microbe 12: 778–790.
17. NgAC, EisenbergJM, HeathRJ, HuettA, RobinsonCM, et al. (2011) Human leucine-rich repeat proteins: a genome-wide bioinformatic categorization and functional analysis in innate immunity. Proc Natl Acad Sci U S A 108 Suppl 1: 4631–4638.
18. ThurstonTL, WandelMP, von MuhlinenN, FoegleinA, RandowF (2012) Galectin 8 targets damaged vesicles for autophagy to defend cells against bacterial invasion. Nature 482: 414–418.
19. VastaGR (2012) Galectins as pattern recognition receptors: structure, function, and evolution. Adv Exp Med Biol 946: 21–36.
20. DupontN, Lacas-GervaisS, BertoutJ, PazI, FrecheB, et al. (2009) Shigella phagocytic vacuolar membrane remnants participate in the cellular response to pathogen invasion and are regulated by autophagy. Cell Host Microbe 6: 137–149.
21. PazI, SachseM, DupontN, MounierJ, CederfurC, et al. (2010) Galectin-3, a marker for vacuole lysis by invasive pathogens. Cell Microbiol 12: 530–544.
22. BeuzonCR, MeresseS, UnsworthKE, Ruiz-AlbertJ, GarvisS, et al. (2000) Salmonella maintains the integrity of its intracellular vacuole through the action of SifA. EMBO J 19: 3235–3249.
23. CreaseyEA, IsbergRR (2012) The protein SdhA maintains the integrity of the Legionella-containing vacuole. Proc Natl Acad Sci U S A 109: 3481–3486.
24. KumarY, ValdiviaRH (2008) Actin and intermediate filaments stabilize the Chlamydia trachomatis vacuole by forming dynamic structural scaffolds. Cell Host Microbe 4: 159–169.
25. HaldarAK, SakaHA, PiroAS, DunnJD, HenrySC, et al. (2013) IRG and GBP host resistance factors target aberrant, “non-self” vacuoles characterized by the missing of “self” IRGM proteins. PLoS Pathog 9: e1003414 doi:10.1371/journal.ppat.1003414
26. HowardJC, HunnJP, SteinfeldtT (2011) The IRG protein-based resistance mechanism in mice and its relation to virulence in Toxoplasma gondii. Curr Opin Microbiol 14: 414–421.
27. CoersJ, Bernstein-HanleyI, GrotskyD, ParvanovaI, HowardJC, et al. (2008) Chlamydia muridarum evades growth restriction by the IFN-gamma-inducible host resistance factor Irgb10. J Immunol 180: 6237–6245.
28. MartensS, ParvanovaI, ZerrahnJ, GriffithsG, SchellG, et al. (2005) Disruption of Toxoplasma gondii parasitophorous vacuoles by the mouse p47-resistance GTPases. PLoS Pathog 1: e24 doi:10.1371/journal.ppat.0010024
29. Al-ZeerMA, Al-YounesHM, BraunPR, ZerrahnJ, MeyerTF (2009) IFN-γ-inducible Irga6 mediates host resistance against Chlamydia trachomatis via autophagy. PLoS ONE 4: e4588 doi:10.1371/journal.pone.0004588
30. LingYM, ShawMH, AyalaC, CoppensI, TaylorGA, et al. (2006) Vacuolar and plasma membrane stripping and autophagic elimination of Toxoplasma gondii in primed effector macrophages. J Exp Med 203: 2063–2071.
31. HunnJP, Koenen-WaismanS, PapicN, SchroederN, PawlowskiN, et al. (2008) Regulatory interactions between IRG resistance GTPases in the cellular response to Toxoplasma gondii. EMBO J 27: 2495–2509.