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Integrative Genomic Analysis Identifies Isoleucine and CodY as Regulators of Virulence


Intracellular bacterial pathogens are metabolically adapted to grow within mammalian cells. While these adaptations are fundamental to the ability to cause disease, we know little about the relationship between the pathogen's metabolism and virulence. Here we used an integrative Metabolic Analysis Tool that combines transcriptome data with genome-scale metabolic models to define the metabolic requirements of Listeria monocytogenes during infection. Twelve metabolic pathways were identified as differentially active during L. monocytogenes growth in macrophage cells. Intracellular replication requires de novo synthesis of histidine, arginine, purine, and branch chain amino acids (BCAAs), as well as catabolism of L-rhamnose and glycerol. The importance of each metabolic pathway during infection was confirmed by generation of gene knockout mutants in the respective pathways. Next, we investigated the association of these metabolic requirements in the regulation of L. monocytogenes virulence. Here we show that limiting BCAA concentrations, primarily isoleucine, results in robust induction of the master virulence activator gene, prfA, and the PrfA-regulated genes. This response was specific and required the nutrient responsive regulator CodY, which is known to bind isoleucine. Further analysis demonstrated that CodY is involved in prfA regulation, playing a role in prfA activation under limiting conditions of BCAAs. This study evidences an additional regulatory mechanism underlying L. monocytogenes virulence, placing CodY at the crossroads of metabolism and virulence.


Vyšlo v časopise: Integrative Genomic Analysis Identifies Isoleucine and CodY as Regulators of Virulence. PLoS Genet 8(9): e32767. doi:10.1371/journal.pgen.1002887
Kategorie: Research Article
prolekare.web.journal.doi_sk: https://doi.org/10.1371/journal.pgen.1002887

Souhrn

Intracellular bacterial pathogens are metabolically adapted to grow within mammalian cells. While these adaptations are fundamental to the ability to cause disease, we know little about the relationship between the pathogen's metabolism and virulence. Here we used an integrative Metabolic Analysis Tool that combines transcriptome data with genome-scale metabolic models to define the metabolic requirements of Listeria monocytogenes during infection. Twelve metabolic pathways were identified as differentially active during L. monocytogenes growth in macrophage cells. Intracellular replication requires de novo synthesis of histidine, arginine, purine, and branch chain amino acids (BCAAs), as well as catabolism of L-rhamnose and glycerol. The importance of each metabolic pathway during infection was confirmed by generation of gene knockout mutants in the respective pathways. Next, we investigated the association of these metabolic requirements in the regulation of L. monocytogenes virulence. Here we show that limiting BCAA concentrations, primarily isoleucine, results in robust induction of the master virulence activator gene, prfA, and the PrfA-regulated genes. This response was specific and required the nutrient responsive regulator CodY, which is known to bind isoleucine. Further analysis demonstrated that CodY is involved in prfA regulation, playing a role in prfA activation under limiting conditions of BCAAs. This study evidences an additional regulatory mechanism underlying L. monocytogenes virulence, placing CodY at the crossroads of metabolism and virulence.


Zdroje

1. RayK, MarteynB, SansonettiPJ, TangCM (2009) Life on the inside: the intracellular lifestyle of cytosolic bacteria. Nat Rev Microbiol 7: 333–340.

2. SwaminathanB, Gerner-SmidtP (2007) The epidemiology of human listeriosis. Microbes Infect 9: 1236–1243.

3. BierneH, SabetC, PersonnicN, CossartP (2007) Internalins: a complex family of leucine-rich repeat-containing proteins in Listeria monocytogenes. Microbes Infect 9: 1156–1166.

4. CossartP, VicenteMF, MengaudJ, BaqueroF, Perez-DiazJC, et al. (1989) Listeriolysin O is essential for virulence of Listeria monocytogenes: direct evidence obtained by gene complementation. Infect Immun 57: 3629–3636.

5. SmithGA, MarquisH, JonesS, JohnstonNC, PortnoyDA, et al. (1995) The two distinct phospholipases C of Listeria monocytogenes have overlapping roles in escape from a vacuole and cell-to-cell spread. Infect Immun 63: 4231–4237.

6. KathariouS, MetzP, HofH, GoebelW (1987) Tn916-induced mutations in the hemolysin determinant affecting virulence of Listeria monocytogenes. J Bacteriol 169: 1291–1297.

7. TilneyLG, PortnoyDA (1989) Actin filaments and the growth, movement, and spread of the intracellular bacterial parasite, Listeria monocytogenes. J Cell Biol 109: 1597–1608.

8. KocksC, GouinE, TabouretM, BercheP, OhayonH, et al. (1992) L. monocytogenes-induced actin assembly requires the actA gene product, a surface protein. Cell 68: 521–531.

9. DussurgetO, Pizarro-CerdaJ, CossartP (2004) Molecular determinants of Listeria monocytogenes virulence. Annu Rev Microbiol 58: 587–610.

10. EylertE, ScharJ, MertinsS, StollR, BacherA, et al. (2008) Carbon metabolism of Listeria monocytogenes growing inside macrophages. Mol Microbiol 69: 1008–1017.

11. JosephB, MertinsS, StollR, ScharJ, UmeshaKR, et al. (2008) Glycerol metabolism and PrfA activity in Listeria monocytogenes. J Bacteriol 190: 5412–5430.

12. RipioMT, BrehmK, LaraM, SuarezM, Vazquez-BolandJA (1997) Glucose-1-phosphate utilization by Listeria monocytogenes is PrfA dependent and coordinately expressed with virulence factors. J Bacteriol 179: 7174–7180.

13. Chico-CaleroI, SuarezM, Gonzalez-ZornB, ScorttiM, SlaghuisJ, et al. (2002) Hpt, a bacterial homolog of the microsomal glucose- 6-phosphate translocase, mediates rapid intracellular proliferation in Listeria. Proc Natl Acad Sci U S A 99: 431–436.

14. EisenreichW, DandekarT, HeesemannJ, GoebelW (2010) Carbon metabolism of intracellular bacterial pathogens and possible links to virulence. Nat Rev Microbiol 8: 401–412.

15. FreitagNE, PortGC, MinerMD (2009) Listeria monocytogenes - from saprophyte to intracellular pathogen. Nat Rev Microbiol 7: 623–628.

16. JosephB, PrzybillaK, StuhlerC, SchauerK, SlaghuisJ, et al. (2006) Identification of Listeria monocytogenes genes contributing to intracellular replication by expression profiling and mutant screening. J Bacteriol 188: 556–568.

17. SchauerK, GeginatG, LiangC, GoebelW, DandekarT, et al. (2010) Deciphering the intracellular metabolism of Listeria monocytogenes by mutant screening and modelling. BMC Genomics 11: 573.

18. StritzkerJ, JandaJ, SchoenC, TauppM, PilgrimS, et al. (2004) Growth, virulence, and immunogenicity of Listeria monocytogenes aro mutants. Infect Immun 72: 5622–5629.

19. SchauerK, StolzJ, SchererS, FuchsTM (2009) Both thiamine uptake and biosynthesis of thiamine precursors are required for intracellular replication of Listeria monocytogenes. J Bacteriol 191: 2218–2227.

20. KeeneyKM, StuckeyJA, O'RiordanMX (2007) LplA1-dependent utilization of host lipoyl peptides enables Listeria cytosolic growth and virulence. Mol Microbiol 66: 758–770.

21. JosephB, GoebelW (2007) Life of Listeria monocytogenes in the host cells' cytosol. Microbes Infect 9: 1188–1195.

22. GarsinDA (2010) Ethanolamine utilization in bacterial pathogens: roles and regulation. Nat Rev Microbiol 8: 290–295.

23. BuchrieserC, RusniokC, KunstF, CossartP, GlaserP (2003) Comparison of the genome sequences of Listeria monocytogenes and Listeria innocua: clues for evolution and pathogenicity. FEMS Immunol Med Microbiol 35: 207–213.

24. OberhardtMA, PalssonBO, PapinJA (2009) Applications of genome-scale metabolic reconstructions. Mol Syst Biol 5: 320.

25. PriceND, ReedJL, PalssonBO (2004) Genome-scale models of microbial cells: evaluating the consequences of constraints. Nat Rev Microbiol 2: 886–897.

26. KimHU, KimSY, JeongH, KimTY, KimJJ, et al. (2011) Integrative genome-scale metabolic analysis of Vibrio vulnificus for drug targeting and discovery. Mol Syst Biol 7: 460.

27. PlataG, HsiaoTL, OlszewskiKL, LlinasM, VitkupD (2010) Reconstruction and flux-balance analysis of the Plasmodium falciparum metabolic network. Mol Syst Biol 6: 408.

28. HuthmacherC, HoppeA, BulikS, HolzhutterHG (2010) Antimalarial drug targets in Plasmodium falciparum predicted by stage-specific metabolic network analysis. BMC Syst Biol 4: 120.

29. BordbarA, LewisNE, SchellenbergerJ, PalssonBO, JamshidiN (2010) Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions. Mol Syst Biol 6: 422.

30. NavidA, AlmaasE (2009) Genome-scale reconstruction of the metabolic network in Yersinia pestis, strain 91001. Mol Biosyst 5: 368–375.

31. HenryCS, DeJonghM, BestAA, FrybargerPM, LinsayB, et al. (2010) High-throughput generation, optimization and analysis of genome-scale metabolic models. Nat Biotechnol 28: 977–982.

32. ZurH, RuppinE, ShlomiT (2010) iMAT: an integrative metabolic analysis tool. Bioinformatics 26: 3140–3142.

33. ShlomiT, CabiliMN, HerrgardMJ, PalssonBO, RuppinE (2008) Network-based prediction of human tissue-specific metabolism. Nat Biotechnol 26: 1003–1010.

34. AzizRK, BartelsD, BestAA, DeJonghM, DiszT, et al. (2008) The RAST Server: rapid annotations using subsystems technology. BMC Genomics 9: 75.

35. BegleyM, BronPA, HeustonS, CaseyPG, EnglertN, et al. (2008) Analysis of the isoprenoid biosynthesis pathways in Listeria monocytogenes reveals a role for the alternative 2-C-methyl-D-erythritol 4-phosphate pathway in murine infection. Infect Immun 76: 5392–5401.

36. Phan-ThanhL, GormonT (1997) A chemically defined minimal medium for the optimal culture of Listeria. Int J Food Microbiol 35: 91–95.

37. MartinRE, KirkK (2007) Transport of the essential nutrient isoleucine in human erythrocytes infected with the malaria parasite Plasmodium falciparum. Blood 109: 2217–2224.

38. KohnoH, KandaS, KannoT (1986) Immunoaffinity purification and characterization of leucine aminopeptidase from human liver. J Biol Chem 261: 10744–10748.

39. EagleH, PiezKA, LevyM (1961) The intracellular amino acid concentrations required for protein synthesis in cultured human cells. J Biol Chem 236: 2039–2042.

40. BronPA, MonkIR, CorrSC, HillC, GahanCG (2006) Novel luciferase reporter system for in vitro and organ-specific monitoring of differential gene expression in Listeria monocytogenes. Appl Environ Microbiol 72: 2876–2884.

41. ShiversRP, SonensheinAL (2004) Activation of the Bacillus subtilis global regulator CodY by direct interaction with branched-chain amino acids. Mol Microbiol 53: 599–611.

42. BennettHJ, PearceDM, GlennS, TaylorCM, KuhnM, et al. (2007) Characterization of relA and codY mutants of Listeria monocytogenes: identification of the CodY regulon and its role in virulence. Mol Microbiol 63: 1453–1467.

43. StenzL, FrancoisP, WhitesonK, WolzC, LinderP, et al. (2011) The CodY pleiotropic repressor controls virulence in gram-positive pathogens. FEMS Immunol Med Microbiol 62: 123–139.

44. VillapakkamAC, HandkeLD, BelitskyBR, LevdikovVM, WilkinsonAJ, et al. (2009) Genetic and biochemical analysis of the interaction of Bacillus subtilis CodY with branched-chain amino acids. J Bacteriol 191: 6865–6876.

45. FreitagNE, PortnoyDA (1994) Dual promoters of the Listeria monocytogenes prfA transcriptional activator appear essential in vitro but are redundant in vivo. Mol Microbiol 12: 845–853.

46. RauchM, LuoQ, Muller-AltrockS, GoebelW (2005) SigB-dependent in vitro transcription of prfA and some newly identified genes of Listeria monocytogenes whose expression is affected by PrfA in vivo. J Bacteriol 187: 800–804.

47. OllingerJ, BowenB, WiedmannM, BoorKJ, BergholzTM (2009) Listeria monocytogenes sigmaB modulates PrfA-mediated virulence factor expression. Infect Immun 77: 2113–2124.

48. EisenreichW, SlaghuisJ, LaupitzR, BussemerJ, StritzkerJ, et al. (2006) 13C isotopologue perturbation studies of Listeria monocytogenes carbon metabolism and its modulation by the virulence regulator PrfA. Proc Natl Acad Sci U S A 103: 2040–2045.

49. ReedsPJ (2000) Dispensable and indispensable amino acids for humans. J Nutr 130: 1835S–1840S.

50. RyanS, BegleyM, GahanCG, HillC (2009) Molecular characterization of the arginine deiminase system in Listeria monocytogenes: regulation and role in acid tolerance. Environ Microbiol 11: 432–445.

51. J D KoppleMES (1975) Evidence that histidine is an essential amino acid in normal and chronically uremic man. J Clin Invest 55: 881–891.

52. AtkinsT, PriorRG, MackK, RussellP, NelsonM, et al. (2002) A mutant of Burkholderia pseudomallei, auxotrophic in the branched chain amino acid biosynthetic pathway, is attenuated and protective in a murine model of melioidosis. Infect Immun 70: 5290–5294.

53. PilatzS, BreitbachK, HeinN, FehlhaberB, SchulzeJ, et al. (2006) Identification of Burkholderia pseudomallei genes required for the intracellular life cycle and in vivo virulence. Infect Immun 74: 3576–3586.

54. DrazekES, HoungHS, CrawfordRM, HadfieldTL, HooverDL, et al. (1995) Deletion of purE attenuates Brucella melitensis 16 M for growth in human monocyte-derived macrophages. Infect Immun 63: 3297–3301.

55. JenkinsA, CoteC, TwenhafelN, MerkelT, BozueJ, et al. (2011) Role of purine biosynthesis in Bacillus anthracis pathogenesis and virulence. Infect Immun 79: 153–166.

56. JacksonM, PhalenSW, LagranderieM, EnsergueixD, ChavarotP, et al. (1999) Persistence and protective efficacy of a Mycobacterium tuberculosis auxotroph vaccine. Infect Immun 67: 2867–2873.

57. GrovesRD, WelshimerHJ (1977) Separation of pathogenic from apathogenic Listeria monocytogenes by three in vitro reactions. J Clin Microbiol 5: 559–563.

58. KamisangoK, FujiiH, OkumuraH, SaikiI, ArakiY, et al. (1983) Structural and immunochemical studies of teichoic acid of Listeria monocytogenes. J Biochem 93: 1401–1409.

59. EugsterMRLM (2011) Rapid Analysis of Listeria monocytogenes Cell Wall Teichoic Acid Carbohydrates by ESI-MS/MS. PLoS ONE 6 doi:10.1371/journal.pone.0021500.

60. DuoM, HouS, RenD (2008) Identifying Escherichia coli genes involved in intrinsic multidrug resistance. Appl Microbiol Biotechnol 81: 731–741.

61. BozueJA, ParthasarathyN, PhillipsLR, CoteCK, FellowsPF, et al. (2005) Construction of a rhamnose mutation in Bacillus anthracis affects adherence to macrophages but not virulence in guinea pigs. Microb Pathog 38: 1–12.

62. OlivaC, TurnboughCLJr, KearneyJF (2009) CD14-Mac-1 interactions in Bacillus anthracis spore internalization by macrophages. Proc Natl Acad Sci U S A 106: 13957–13962.

63. StollR, MertinsS, JosephB, Muller-AltrockS, GoebelW (2008) Modulation of PrfA activity in Listeria monocytogenes upon growth in different culture media. Microbiology 154: 3856–3876.

64. SomervilleGA, ProctorRA (2009) At the crossroads of bacterial metabolism and virulence factor synthesis in Staphylococci. Microbiol Mol Biol Rev 73: 233–248.

65. MolleV, NakauraY, ShiversRP, YamaguchiH, LosickR, et al. (2003) Additional targets of the Bacillus subtilis global regulator CodY identified by chromatin immunoprecipitation and genome-wide transcript analysis. J Bacteriol 185: 1911–1922.

66. ShiversRP, DineenSS, SonensheinAL (2006) Positive regulation of Bacillus subtilis ackA by CodY and CcpA: establishing a potential hierarchy in carbon flow. Mol Microbiol 62: 811–822.

67. PreisH, EckartRA, GudipatiRK, HeidrichN, BrantlS (2009) CodY activates transcription of a small RNA in Bacillus subtilis. J Bacteriol 191: 5446–5457.

68. HendriksenWT, BootsmaHJ, EstevaoS, HoogenboezemT, de JongA, et al. (2008) CodY of Streptococcus pneumoniae: link between nutritional gene regulation and colonization. J Bacteriol 190: 590–601.

69. DineenSS, McBrideSM, SonensheinAL (2010) Integration of metabolism and virulence by Clostridium difficile CodY. J Bacteriol 192: 5350–5362.

70. van SchaikW, ChateauA, DilliesMA, CoppeeJY, SonensheinAL, et al. (2009) The global regulator CodY regulates toxin gene expression in Bacillus anthracis and is required for full virulence. Infect Immun 77: 4437–4445.

71. ChateauA, van SchaikW, SixA, AucherW, FouetA (2011) CodY regulation is required for full virulence and heme iron acquisition in Bacillus anthracis. FASEB J 25: 4445–4456.

72. KrethJ, ChenZ, FerrettiJ, MalkeH (2011) Counteractive balancing of transcriptome expression involving CodY and CovRS in Streptococcus pyogenes. J Bacteriol 193: 4153–4165.

73. SimonR, PrieferU, PühlerA (1983) A broad host range mobilization system for in vitro genetic engineering: transposon mutagenesis in Gram negative bacteria. Bio/Technology 1: 784–791.

74. HerskovitsAA, AuerbuchV, PortnoyDA (2007) Bacterial ligands generated in a phagosome are targets of the cytosolic innate immune system. PLoS Pathog 3: e51 doi:10.1371/journal.ppat.0030051.

75. GlomskiIJ, GeddeMM, TsangAW, SwansonJA, PortnoyDA (2002) The Listeria monocytogenes hemolysin has an acidic pH optimum to compartmentalize activity and prevent damage to infected host cells. J Cell Biol 156: 1029–1038.

76. LeberJH, CrimminsGT, RaghavanS, Meyer-MorseNP, CoxJS, et al. (2008) Distinct TLR- and NLR-mediated transcriptional responses to an intracellular pathogen. PLoS Pathog 4: e6 doi:10.1371/journal.ppat.0040006.

77. LauerP, HansonB, LemmensEE, LiuW, LuckettWS, et al. (2008) Constitutive Activation of the PrfA regulon enhances the potency of vaccines based on live-attenuated and killed but metabolically active Listeria monocytogenes strains. Infect Immun 76: 3742–3753.

78. LauerP, ChowMY, LoessnerMJ, PortnoyDA, CalendarR (2002) Construction, characterization, and use of two Listeria monocytogenes site-specific phage integration vectors. J Bacteriol 184: 4177–4186.

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