Constraint-based network model of pathogen-immune system interactions

Journal of the Royal Society Interface

Volumn 6, Issue 36, 2009, Pages 599-612

  Thakar, Juilee ^a   Saadatpour Moghaddam, Assieh ^a   Harvill, Eric T ^a   Albert, Réka ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

Host pathogen interactions; Hybrid model; In vivo bacterial growth; Network; Piecewise linear model; Regulation of immune components

Indexed keywords

BACTERIOLOGY; CELL MEMBRANES; FORECASTING; HYBRID SENSORS; IMMUNOLOGY; LAWS AND LEGISLATION; PIECEWISE LINEAR TECHNIQUES;

HOST-PATHOGEN INTERACTIONS; HYBRID MODEL; IN VIVO BACTERIAL GROWTH; NETWORK; PIECEWISE LINEAR MODEL; REGULATION OF IMMUNE COMPONENTS;

BACTERIA;

BORDETELLA VIRULENCE FACTOR; CYTOKINE; GAMMA INTERFERON; INTERLEUKIN 10; INTERLEUKIN 12; INTERLEUKIN 4;

ARTICLE; BACTERIAL VIRULENCE; BORDETELLA BRONCHISEPTICA; BORDETELLOSIS; CONSTRAINT BASED NETWORK MODEL; HELPER CELL; HOST PATHOGEN INTERACTION; HUMAN; IMMUNE RESPONSE; IMMUNOMODULATION; LYMPHOCYTE DIFFERENTIATION; MODEL; NONHUMAN; PREDICTION; QUANTITATIVE ANALYSIS; TH2 CELL; BIOLOGICAL MODEL; CELL DIFFERENTIATION; COMPUTER SIMULATION; CYTOLOGY; IMMUNOLOGY; PATHOGENICITY;

BACTERIA (MICROORGANISMS); BORDETELLA BRONCHISEPTICA;

BORDETELLA BRONCHISEPTICA; CELL DIFFERENTIATION; COMPUTER SIMULATION; INTERFERON-GAMMA; INTERLEUKIN-10; MODELS, IMMUNOLOGICAL; T-LYMPHOCYTES, HELPER-INDUCER; VIRULENCE FACTORS, BORDETELLA;

EID: 67650508735     PISSN: 17425689     EISSN: 17425662     Source Type: Journal    
DOI: 10.1098/rsif.2008.0363     Document Type: Article

References (34)

1. Agace, W., Hedges, S., Andersson, U., Andersson, J., Ceska, M. & Svanborg, C. 1993 Selective cytokine production by epithelial cells following exposure to Escherichia coli. Infect. Immun. 61, 602-609.
2. Alon, U. 2006 An introduction to systems biology: design principles of biological circuits. Rehovot, Israel: Chapman & Hall/CRC.
3. Burns, V. C., Pishko, E. J., Preston, A., Maskell, D. J. & Harvill, E. T. 2003 Role of Bordetella O antigen in respiratory tract infection. Infect. Immun. 71, 86-94. (doi:10.1128/IAI.71.1.86-94.2003)
4. Cameron, R. D., Giles, C. J. & Smith, I. M. 1980 The prevalence of Brodetella bronchiseptica and turbinate (conchal) atrophy in English pig herds in 1978-79. Vet. Rec. 107, 146-149.
5. Carvalho-Pinto, C. E., Garcia, M. I., Mellado, M., Rodríguez- Frade, J. M., Martin-Caballero, J., Flores, J., Martínez-A,C. & Balomenos, D. 2002 Autocrine production of IFN-gamma by macrophages controls their recruitment to kidney and the development of glomerulonephritis in MRL/lpr mice. J. Immunol. 169, 1058-1067. (Pubitemid 34753466)
6. Chaves, M., Sontag, E. D. & Albert, R. 2006 Methods of robustness analysis for Boolean models of gene control networks. IEE Proc. Syst. Biol. 153, 154-167. (doi:10.1049/ip-syb:20050079)
7. De Jong, H., Gouze, J.-L., Hernandez, C., Page, M., Sari, T. & Geiselmann, J. 2004 Qualitative simulation of genetic regulatory networks using piecewise-linear models. Bull. Math. Biol. 66, 301-340. (doi:10.1016/j.bulm. 2003.08.010)
8. Diehl, S. & Rincon, M. 2002 The two faces of IL-6 on Th1/Th2 differentiation. Mol. Immunol. 39, 531-536. (doi:10.1016/S0161-5890(02)00210-9)
9. Espinosa-Soto, C., Padilla-Longoria, P. & Alvarez-Buylla, E. R. 2004 A gene regulatory network model for cell-fate determination during Arabidopsis thaliana flower development that is robust and recovers experimental gene expression profiles. Plant Cell 16, 2923-2939. (doi:10.1105/tpc.104.021725)
10. Glass, L. 1975 Classification of biological networks by their qualitative dynamics. J. Theor. Biol. 54, 85-107. (doi:10.1016/S0022-5193(75)80056-7)
11. Gueirard, P., Ave, P., Balazuc, A. M., Thiberge, S., Huerre, M., Milon, G. & Guiso, N. 2003 Bordetella bronchiseptica persists in the nasal cavities of mice and triggers early delivery of dendritic cells in the lymph nodes draining the lower and upper respiratory tract. Infect. Immun. 71, 4137-4143. (doi:10.1128/IAI.71.7.4137-4143.2003)
12. Janeway, C. A., Travers, P., Walport, M. & Shlomchik, M. 2001 Immunobiology. New York, NY: Taylor and Francis.
13. Kalinski, P., Hilkens, C. M., Wierenga, E. A. & Kapsenberg, M. L. 1999 T-cell priming by type-1 and type-2 polarized dendritic cells: the concept of a third signal. Immunol. Today 20, 561-567. (doi:10.1016/S0167-5699(99)01547- 9)
14. Kirimanjeswara, G. S., Mann, P. B., Pilione, M., Kennett, M. J. & Harvill, E. T. 2005 The complex mechanism of antibody-mediated clearance of Bordetella from the lungs requires TLR4. J. Immunol. 175, 7504-7511. (Pubitemid 41713448)
15. Lee, V. T. & Schneewind, O. 1999 Type III secretion machines and the pathogenesis of enteric infections caused by Yersinia and Salmonella spp. Immunol. Rev. 168, 241-255. (doi:10.1111/j.1600-065X.1999.tb01296.x)
16. Li, F., Long, T., Lu, Y., Ouyang, Q. & Tang, C. 2004 The yeast cell-cycle network is robustly designed. Proc. Natl Acad. Sci. USA 101, 4781-4786. (doi:10.1073/pnas.0305937101)
17. MacDonald, A. S. & Pearce, E. J. 2002 Cutting edge: polarized Th cell response induction by transferred antigen-pulsed dendritic cells is dependent on IL-4 or IL-12 production by recipient cells. J. Immunol. 168, 3127-3130. (Pubitemid 34250368)
18. Mann, P. B., Elder, K. D., Kennett, M. J. & Harvill, E. T. 2004 Toll-like receptor 4-dependent early elicited tumor necrosis factor alpha expression is critical for innate host defense against Bordetella bronchiseptica. Infect. Immun. 72, 6650-6658. (doi:10.1128/IAI.72.11.6650-6658. 2004)
19. McGuirk, P., McCann, C. & Mills, K. H. G. 2002 Pathogenspecific T regulatory 1 cells induced in the respiratory tract by a bacterial molecule that stimulates interleukin 10 production by dendritic cells: a novel strategy for evasion of protective T helper type 1 responses by Bordetella pertussis. J. Exp. Med. 195, 221-231. (doi:10.1084/jem.20011288)
20. Mills, K. H. 2004 Regulatory T cells: friend or foe in immunity to infection? Nat. Rev. Immunol. 4, 841-855. (doi:10.1038/nri1485)
21. Peng, S. L., Szabo, S. J. & Glimcher, L. H. 2002 T-bet regulates IgG class switching and pathogenic autoantibody production. Proc. Natl Acad. Sci. USA 99, 5545-5550. (doi:10.1073/pnas.082114899)
22. Pilione, M. R. & Harvill, E. T. 2006 The Bordetella bronchiseptica type III secretion system inhibits gamma interferon production that is required for efficient antibody-mediated bacterial clearance. Infect. Immun. 74, 1043-1049. (doi:10.1128/IAI.74.2.1043-1049.2006)
23. Pishko, E. J., Kirimanjeswara, G. S., Pilione, M. R., Gopinathan, L., Kennett, M. J. & Harvill, E. T. 2004 Antibody-mediated bacterial clearance from the lower respiratory tract of mice requires complement component C3. Eur. J. Immunol. 34, 184-193. (doi:10.1002/eji.200324234)
24. Reis e Sousa, C., Sher, A. & Kaye, P. 1999 The role of dendritic cells in the induction and regulation of immunity to microbial infection. Curr. Opin. Immunol. 11, 392-399. (doi:10.1016/S0952-7915(99)80066-1)
25. Sanchez, L. & Thieffry, D. 2001 A logical analysis of the Drosophila gap-gene system. J. Theor. Biol. 211, 115-141. (doi:10.1006/jtbi.2001.2335)
26. Schoenborn, J. R. & Wilson, C. B. 2007 Regulation of interferon-gamma during innate and adaptive immune responses. Adv. Immunol. 96, 41-101. (doi:10.1016/S0065-2776(07)96002-2)
27. Skinner, J. A., Pilione, M. R., Shen, H., Harvill, E. T. & Yuk, M. H. 2005 Bordetella type III secretion modulates dendritic cell migration resulting in immunosuppression and bacterial persistence. J. Immunol. 175, 4647-4652. (Pubitemid 41362005)
28. Stockbauer, K. E., Foreman-Wykert, A. K. & Miller, J. F. 2003 Bordetella type III secretion induces caspase 1-independent necrosis. Cell Microbiol. 5, 123-132. (doi:10.1046/j.1462-5822.2003.00260.x)
29. Thakar, J., Pilione, M., Kirimanjeswara, G., Harvill, E. T. & Albert, R. 2007 Modeling systems-level regulation of host immune responses. PLoS Comput. Biol. 3, e109. (doi:10.1371/journal.pcbi.0030109)
30. van den Akker, W. M. 1998 Lipopolysaccharide expression within the genus Bordetella: influence of temperature and phase variation. Microbiology 144(Pt 6), 1527-1535. (Pubitemid 28284529)
31. von Dassow, G., Meir, E., Munro, E. M. & Odell, G. M. 2000 The segment polarity network is a robust developmental module. Nature 406, 188-192. (doi:10.1038/35018085) (Pubitemid 30469001)
32. Weinstein, D. L., O'Neill, B. L. & Metcalf, E. S. 1997 Salmonella typhi stimulation of human intestinal epithelial cells induces secretion of epithelial cell-derived interleukin-6. Infect. Immun. 65, 395-404.
33. Yuk, M. H., Harvill, E. T., Cotter, P. A. & Miller, J. F. 2000 Modulation of host immune responses, induction of apoptosis and inhibition of NF-kappaB activation by the Bordetella type III secretion system. Mol. Microbiol. 35, 991-1004. (doi:10.1046/j.1365-2958.2000.01785.x)
34. Zhang, P., Martin, M., Yang, Q. B., Michalek, S. M. & Katz, J. 2004 Role of B7 costimulatory molecules in immune responses and T-helper cell differentiation in response to recombinant HagB from Porphyromonas gingivalis. Infect. Immun. 72, 637-644. (doi:10.1128/IAI.72.2.637-644.2004)