Immature oxidative stress management as a unifying principle in the pathogenesis of necrotizing enterocolitis: Insights from an agent-based model

Surgical Infections

Volumn 13, Issue 1, 2012, Pages 18-32

  Kim, Moses ^a   Christley, Scott ^a   Alverdy, John C ^a   Liu, Donald ^a   An, Gary ^a  

^a UNIVERSITY OF CHICAGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; NITRIC OXIDE; PROTEIN P53; TOLL LIKE RECEPTOR 4;

APOPTOSIS; ARTICLE; CELL POPULATION; CELL RESPIRATION; ENTERIC FEEDING; EPITHELIUM CELL; GOBLET CELL; INFLAMMATION; INTESTINE EPITHELIUM; NECROSIS; NECROTIZING ENTEROCOLITIS; NONHUMAN; OXIDATIVE STRESS; PATHOGENESIS; PRIORITY JOURNAL; SENESCENCE; SIMULATION; TIGHT JUNCTION;

APOPTOSIS; COMPUTER SIMULATION; ENTERAL NUTRITION; ENTEROCOLITIS, NECROTIZING; EPITHELIAL CELLS; GOBLET CELLS; HUMANS; INFANT, NEWBORN; INTESTINAL MUCOSA; MEMBRANE PROTEINS; MODELS, BIOLOGICAL; NECROSIS; NF-KAPPA B; OXIDATIVE STRESS; REACTIVE OXYGEN SPECIES; TIGHT JUNCTIONS; TOLL-LIKE RECEPTOR 4; TUMOR NECROSIS FACTOR-ALPHA; TUMOR SUPPRESSOR PROTEIN P53;

EID: 84863272764     PISSN: 10962964     EISSN: 15578674     Source Type: Journal    
DOI: 10.1089/sur.2011.057     Document Type: Article

References (81)

1. Henry MC, Moss RL. Necrotizing enterocolitis. Annu Rev Med 2009;60:111-124.
2. McGuire W, Anthony MY. Donor human milk versus formula for preventing necrotising enterocolitis in preterm infants: Systematic review. Arch Dis Child Fetal Neonatal Ed 2003;88:F11-F14. (Pubitemid 36084201)
3. Sodhi C, Richardson W, Gribar S, Hackam DJ. The development of animal models for the study of necrotizing en-terocolitis. Dis Model Mech 2008;1:94-98.
4. An G. Concepts for developing a collaborative in silico model of the acute inflammatory response using agent-based modeling. J Crit Care 2006;21:105-110.
5. An G, Hunt CA, Clermont G, et al. Challenges and rewards on the road to translational systems biology in acute illness: Four case reports from interdisciplinary teams. J Crit Care 2007;22:169-175. (Pubitemid 46844859)
6. Bauer AL, Beauchemin CA, Perelson AS. Agent-based modeling of host-pathogen systems: The successes and challenges. Inform Sci 2009;179:1379-1389.
7. An G, Faeder J, Vodovotz Y. Translational systems biology: Introduction of an engineering approach to the pathophys-iology of the burn patient. J Burn Care Res 2008;29:277-285. (Pubitemid 351498820)
8. Vodovotz Y, Csete M, Bartels J, et al. Translational systems biology of inflammation. PLoS Comp Biol 2008;4:e1000014.
9. Arciero JC, Ermentrout GB, Upperman JS, et al. Using a mathematical model to analyze the role of probiotics and inflammation in necrotizing enterocolitis. PloS One 2010;5: e10066.
10. Hunt CA, Ropella GE, Lam TN, et al. At the biological modeling and simulation frontier. Pharm Res 2009;26:2369-2400.
11. An G, Mi Q, Dutta-Moscato J, Vodovotz Y. Agent-based models in translational systems biology. Wiley Interdiscip Rev 2009;1:159-171.
12. An G. Introduction of an agent-based multi-scale modular architecture for dynamic knowledge representation of acute inflammation. Theor Biol Med Model 2008;5:11.
13. Bailey AM, Thorne BC, Peirce SM. Multi-cell agent-based simulation of the microvasculature to study the dynamics of circulating inflammatory cell trafficking. Ann Biomed Eng 2007;35:916-936. (Pubitemid 46828704)
14. Li NY, Verdolini K, Clermont G, et al. A patient-specific in silico model of inflammation and healing tested in acute vocal fold injury. PloS One 2008;3:e2789.
15. Vodovotz Y, An G. Systems biology and inflammation. Methods Mol Biol 2010;662:181-201.
16. Vodovotz Y, Clermont G, Chow C, An G. Mathematical models of the acute inflammatory response. Curr Opin Crit Care 2004;10:383-390. (Pubitemid 39313509)
17. Dong X, Foteinou PT, Calvano SE, et al. Agent-based modeling of endotoxin-induced acute inflammatory response in human blood leukocytes. PloS One 2010;5:e9249.
18. Kim SH, Debnath J, Mostov K, et al. A computational approach to resolve cell level contributions to early glandular epithelial cancer progression. BMC Syst Biol 2009;3:122.
19. Mansury Y, Diggory M, Deisboeck TS. Evolutionary game theory in an agent-based brain tumor model: Exploring the "genotype-phenotype" link. J Theor Biol 2006;238:146-156. (Pubitemid 41737803)
20. Zhang L, Strouthos CG, Wang Z, Deisboeck TS. Simulating brain tumor heterogeneity with a multiscale agent-based model: Linking molecular signatures, phenotypes and expansion rate. Math Comp Model 2009;49:307-319.
21. Zhang L, Wang Z, Sagotsky JA, Deisboeck TS. Multiscale agent-based cancer modeling. J Math Biol 2009;58:545-559.
22. Beauchemin C, Samuel J, Tuszynski J. A simple cellular automaton model for influenza A viral infections. J Theor Biol 2005;232:223-234. (Pubitemid 39458050)
23. Chao DL, Davenport MP, Forrest S, Perelson AS. Stochastic stage-structured modeling of the adaptive immune system. Proc IEEE Comp Soc Bioinformat Conf 2003;2:124-131.
24. Funk GA, Barbour AD, Hengartner H, Kalinke U. Mathematical model of a virus-neutralizing immunglobulin response. J Theor Biol 1998;195:41-52. (Pubitemid 28521907)
25. Funk GA, Jansen VA, Bonhoeffer S, Killingback T. Spatial models of virus-immune dynamics. J Theor Biol 2005;233: 221-236. (Pubitemid 40023178)
26. Peleg M, Penchina CM. Modeling microbial survival during exposure to a lethal agent with varying intensity. Crit Rev Food Sci Nutr 2000;40:159-172.
27. Walker DC, Hill G, Wood SM, et al. Agent-based computational modeling of wounded epithelial cell monolayers. IEEE Trans Nanobiosci 2004;3:153-163.
28. Walker D, Wood S, Southgate J, et al. An integrated agent-mathematical model of the effect of intercellular signalling via the epidermal growth factor receptor on cell proliferation. J Theor Biol 2006;242:774-789. (Pubitemid 44291701)
29. Young WR, Roberts AJ, Stuhne G. Reproductive pair correlations and the clustering of organisms. Nature 2001; 412:328-331. (Pubitemid 32691845)
30. Durrett R, Levin S. Spatial aspects of interspecific competition. Theor Pop Biol 1998;53:30-43. (Pubitemid 28417743)
31. Durrett R, Levin SA. Stochastic spatial models: A user's guide to ecological applications. Phil Transact R Soc London B Biol Sci 1994;343:329-350. (Pubitemid 2053249)
32. Strain MC, Richman DD, Wong JK, Levine H. Spatio-temporal dynamics of HIV propagation. J Theor Biol 2002; 218:85-96.
33. Castiglione F, Pappalardo F, Bernaschi M, Motta S. Optimization of HAART with genetic algorithms and agent-based models of HIV infection. Bioinformatics 2007;23:3350-3355. (Pubitemid 350238888)
34. Beauchemin C. Probing the effects of the well-mixed assumption on viral infection dynamics. J Theor Biol 2006;242:464-477. (Pubitemid 44232822)
35. Lloyd AL, May RM. Spatial heterogeneity in epidemic models. J Theor Biol 1996;179:1-11. (Pubitemid 26137775)
36. Hagenaars TJ, Donnelly CA, Ferguson NM. Spatial heterogeneity and the persistence of infectious diseases. J Theor Biol 2004;229:349-359. (Pubitemid 38844939)
37. Chopard B, Luthi P, Droz M. Reaction-diffusion cellular automata model for the formation of Leisegang patterns. Phys Rev Lett 1994;72:1384-1387. (Pubitemid 24975802)
38. Reynolds CW. Flocks, herds, and schools: A distributed behavioral model. Comp Graph 1987;21:25-34.
39. Railsback SF, Lamberson RH, Harvey BC, Duffy WE. Movement rules for individual-based models of stream fish. Ecol Model 1999;123:73-89.
40. Grimm V, Revilla E, Berger U, et al. Pattern-oriented modeling of agent-based complex systems: Lessons from ecology. Science 2005;310:987-991. (Pubitemid 41611904)
41. Netotea S, Bertani I, Steindler L, et al. A simple model for the early events of quorum sensing in Pseudomonas aeruginosa: Modeling bacterial swarming as the movement of an "activation zone." Biol Direct 2009;4:6.
42. Goryachev AB, Toh DJ, Wee KB, et al. Transition to quorum sensing in an Agrobacterium population: A stochastic model. PLoS Comp Biol 2005;1:e37.
43. Rosen R. Life Itself. New York. Columbia University Park. 1991.
44. An GC, Faeder JR. Detailed qualitative dynamic knowledge representation using a BioNetGen model of TLR-4 signaling and preconditioning. Math Biosci 2009;217:53-63.
45. An G. A model of TLR4 signaling and tolerance using a qualitative, particle-event-based method: Introduction of spatially configured stochastic reaction chambers (SCSRC). Math Biosci 2009;217:43-52.
46. Finkel T, Holbrook NJ. Oxidants, oxidative stress and the biology of ageing. Nature 2000;408:239-247.
47. Polyak K, Xia Y, Zweier JL, et al. A model for p53-induced apoptosis. Nature 1997;389:300-305. (Pubitemid 27406646)
48. Johnson TM, Yu ZX, Ferrans VJ, et al. Reactive oxygen species are downstream mediators of p53-dependent apo-ptosis. Proc Natl Acad Sci USA 1996;93:11848-11852. (Pubitemid 26347212)
49. Chen Z, Trotman LC, Shaffer D, et al. Crucial role of p53-dependent cellular senescence in suppression of Pten-deficient tumorigenesis. Nature 2005;436:725-730. (Pubitemid 41117277)
50. Schuler M, Bossy-Wetzel E, Goldstein JC, et al. p53 induces apoptosis by caspase activation through mitochondrial cy-tochrome c release. J Biol Chem 2000;275:7337-7342. (Pubitemid 30146286)
51. Siebenlist U, Franzoso G, Brown K. Structure, regulation and function of NF-kappa B. Annu Rev Cell Biol 1994;10:405-455.
52. Schreck R, Rieber P, Baeuerle PA. Reactive oxygen intermediates as apparently widely used messengers in the activation of the NF-kappa B transcription factor and HIV-1. EMBO J 1991;10:2247-2258. (Pubitemid 21905698)
53. Schmidt KN, Traenckner EB, Meier B, Baeuerle PA. Induction of oxidative stress by okadaic acid is required for activation of transcription factor NF-kappa B. J Biol Chem 1995;270:27136-27142.
54. Trede NS, Tsytsykova AV, Chatila T, et al. Transcriptional activation of the human TNF-alpha promoter by super-antigen in human monocytic cells: Role of NF-kappa B. J Immunol 1995;155:902-908.
55. Kone BC, Schwobel J, Turner P, et al. Role of NF-kappa B in the regulation of inducible nitric oxide synthase in an MTAL cell line. Am J Physiol 1995;269:F718-F729. (Pubitemid 3006022)
56. Flodstrom M, Welsh N, Eizirik DL. Cytokines activate the nuclear factor kappa B (NF-kappa B) and induce nitric oxide production in human pancreatic islets. FEBS Lett 1996;385: 4-6.
57. Nadler EP, Dickinson E, Knisely A, et al. Expression of in-ducible nitric oxide synthase and interleukin-12 in experimental necrotizing enterocolitis. J Surg Res 2000;92:71-77. (Pubitemid 30437462)
58. Van Antwerp DJ, Martin SJ, Kafri T, et al. Suppression of TNF-alpha-induced apoptosis by NF-kappaB. Science 1996;274:787-789.
59. Wang CY, Mayo MW, Baldwin AS Jr. TNF-and cancer therapy-induced apoptosis: Potentiation by inhibition of NF-kappaB. Science 1996;274:784-787. (Pubitemid 26398259)
60. Beg AA, Finco TS, Nantermet PV, Baldwin AS Jr. Tumor necrosis factor and interleukin-1 lead to phosphorylation and loss of I kappa B alpha: A mechanism for NF-kappa B activation. Mol Cell Biol 1993;13:3301-3310. (Pubitemid 23157268)
61. Chan FK, Shisler J, Bixby JG, et al. A role for tumor necrosis factor receptor-2 and receptor-interacting protein in programmed necrosis and antiviral responses. J Biol Chem 2003;278:51613-51621. (Pubitemid 38020406)
62. Verstrepen L, Bekaert T, Chau TL, et al. TLR-4, IL-1R and TNF-R signaling to NF-kappaB: Variations on a common theme. Cell Mol Life Sci 2008;65:2964-2978.
63. Caplan MS, Simon D, Jilling T. The role of PAF, TLR, and the inflammatory response in neonatal necrotizing enterocolitis. Semin Pediatr Surg 2005;14:145-151. (Pubitemid 41111600)
64. Schneeberger EE, Lynch RD. The tight junction: A multifunctional complex. Am J Physiol Cell Physiol 2004;286: C1213-C1228. (Pubitemid 38649971)
65. Han X, Fink MP, Delude RL. Proinflammatory cytokines cause NO-dependent and-independent changes in expression and localization of tight junction proteins in intestinal epithelial cells. Shock 2003;19:229-237.
66. Einerhand AW, Renes IB, Makkink MK, et al. Role of mucins in inflammatory bowel disease: Important lessons from experimental models. Eur J Gastroenterol Hepatol 2002;14: 757-765. (Pubitemid 34753960)
67. Ballance WA, Dahms BB, Shenker N, Kliegman RM. Pathology of neonatal necrotizing enterocolitis: A ten-year experience. J Pediatr 1990;117:S6-S13. (Pubitemid 20219504)
68. Ryley HC, Rennie D, Bradley DM. The composition of a mucus glycoprotein from meconium of cystic fibrosis, healthy pre-term and full-term neonates. Clin Chim Acta 1983;135:49-56. (Pubitemid 14241237)
69. Sharma R, Tepas JJ 3rd. Microecology, intestinal epithelial barrier and necrotizing enterocolitis. Pediatr Surg Int 2010;26:11-21.
70. Magne F, Abely M, Boyer F, et al. Low species diversity and high interindividual variability in faeces of preterm infants as revealed by sequences of 16S rRNA genes and PCR-temporal temperature gradient gel electrophoresis profiles. FEMS Microbiol Ecol 2006;57:128-138. (Pubitemid 43880249)
71. Khailova L, Dvorak K, Arganbright KM, et al. Bifidobacterium bifidum improves intestinal integrity in a rat model of nec-rotizing enterocolitis. Am J Physiol Gastrointest Liver Phy-siol 2009;297:G940-G949.
72. Wang Y, Hoenig JD, Malin KJ, et al. 16S rRNA gene-based analysis of fecal microbiota from preterm infants with and without necrotizing enterocolitis. ISME J 2009;3:944-954.
73. Hsueh W, Caplan MS, Qu XW, et al. Neonatal necrotizing enterocolitis: Clinical considerations and pathogenetic concepts. Pediatr Dev Pathol 2003;6:6-23. (Pubitemid 36323623)
74. Clark DA, Fornabaio DM, McNeill H, et al. Contribution of oxygen-derived free radicals to experimental necrotizing enterocolitis. Am J Pathol 1988;130:537-542. (Pubitemid 18091382)
75. Leaphart CL, Cavallo J, Gribar SC, et al. A critical role for TLR4 in the pathogenesis of necrotizing enterocolitis by modulating intestinal injury and repair. J Immunol 2007; 179:4808-4820.
76. Morowitz MJ, Poroyko V, Caplan M, et al. Redefining the role of intestinal microbes in the pathogenesis of necrotizing enterocolitis. Pediatrics 2010;125:777-785.
77. Hackam DJ, Upperman JS, Grishin A, Ford HR. Disordered enterocyte signaling and intestinal barrier dysfunction in the pathogenesis of necrotizing enterocolitis. Semin Pediatr Surg 2005;14:49-57. (Pubitemid 40568755)
78. Clark JA, Doelle SM, Halpern MD, et al. Intestinal barrier failure during experimental necrotizing enterocolitis: Protective effect of EGF treatment. Am J Physiol Gastrointest Liver Physiol 2006;291:G938-G949. (Pubitemid 44772020)
79. Lin J. Too much short chain fatty acids cause neonatal nec-rotizing enterocolitis. Med Hypoth 2004;62:291-293. (Pubitemid 38253398)
80. Waligora-Dupriet AJ, Dugay A, Auzeil N, et al. Short-chain fatty acids and polyamines in the pathogenesis of necrotiz-ing enterocolitis: Kinetics aspects in gnotobiotic quails. Anaerobe 2009;15:138-144.
81. Sanderson IR. Short chain fatty acid regulation of signaling genes expressed by the intestinal epithelium. J Nutr 2004;134:2450S-2454S. (Pubitemid 39201620)