Agent-based simulation of T-cell activation and proliferation within a lymph node

Immunology and Cell Biology

Volumn 88, Issue 2, 2010, Pages 172-179

  Bogle, Gib ^a,b   Dunbar, P Rod ^a,c  

^a UNIVERSITY OF AUCKLAND   (New Zealand)

^b UNIVERSITY OF AUCKLAND   (New Zealand)

^c UNIVERSITY OF AUCKLAND   (New Zealand)

Author keywords

Activation; Agent based; Paracortex; Proliferation; Simulation; T cell

Indexed keywords

ARTICLE; CELL DENSITY; CELL INTERACTION; CELL MIGRATION; CELLULAR IMMUNITY; CONTROLLED STUDY; DENDRITIC CELL; HUMAN; HUMAN CELL; IMMUNE RESPONSE; IN VIVO STUDY; KINETICS; LYMPH NODE; LYMPHOCYTE COUNT; LYMPHOCYTE PROLIFERATION; MOLECULAR DYNAMICS; SIGNAL TRANSDUCTION; SIMULATION; T LYMPHOCYTE; T LYMPHOCYTE ACTIVATION; T LYMPHOCYTE SUBPOPULATION; THREE DIMENSIONAL IMAGING;

ANIMALS; CELL PROLIFERATION; COMPUTER SIMULATION; DENDRITIC CELLS; LYMPH NODES; LYMPHOCYTE ACTIVATION; LYMPHOCYTE COUNT; MICE; MODELS, IMMUNOLOGICAL; T-LYMPHOCYTES; TIME FACTORS;

EID: 77149134316     PISSN: 08189641     EISSN: 14401711     Source Type: Journal    
DOI: 10.1038/icb.2009.78     Document Type: Article

References (59)

1. + T cell priming by dendritic cells in intact lymph nodes. Nat Immunol 2003; 4: 579-585.
2. Cahalan MD, Parker I, Wei SH, Miller MJ. Real-time imaging of lymphocytes in vivo. Curr Opin Immunol 2003; 15: 372-377.
3. Miller MJ, Hejazi AS, Wei SH, Cahalan MD, Parker I. T cell repertoire scanning is promoted by dynamic dendritic cell behavior and random T cell motility in the lymph node. Proc Natl Acad Sci USA 2004; 101: 998-1003.
4. + T cell activation by dendritic cells in lymph nodes. J Exp Med 2004; 200: 847-856.
5. Miller MJ, Wei SH, Cahalan MD, Parker I. Autonomous T cell trafficking examined in vivo with intravital two-photon microscopy. Proc Natl Acad Sci USA 2003; 100: 2604-2609.
6. Wei SH, Parker I, Miller MJ, Cahalan MD. A stochastic view of lymphocyte motility and trafficking within the lymph node. Immunol Rev 2003; 195: 136-159.
7. Smith JA, Martin L. Do cells cycle? Proc Natl Acad Sci USA 1973; 70: 1263-1267.
8. Gett AV, Hodgkin PD. A cellular calculus for signal integration by T cells. Nat Immunol 2000; 1: 239-244.
9. De Boer RJ, Ganusov VV, Milutinovic D, Hodgkin PD, Perelson AS. Estimating lymphocyte division and death rates from CFSE data. Bull Math Biol 2006; 68: 1011-1031.
10. + T cell populations by affecting cell death: insights from modeling CFSE data. J Immunol 2007; 179: 950-957.
11. Callard R, Hodgkin P. Modeling T- and B-cell growth and differentiation. Immunol Rev 2007; 216: 119-129.
12. Thorne BC, Bailey AM, Peirce SM. Combining experiments with multi-cell agentbased modeling to study biological tissue patterning. Brief Bioinform 2007; 8: 245-257.
13. Meier-Schellersheim M, Xu X, Angermann B, Kunkel EJ, Jin T, Germain RN. Key role of local regulation in chemosensing revealed by a new molecular interaction-based modeling method. PLoS Comput Biol 2006; 2: e82.
14. Pogson M, Smallwood R, Qwarnstrom E, Holcombe M. Formal agent-based modelling of intracellular chemical interactions. Biosystems 2006; 85: 37-45.
15. Pratt SC, Sumpter DJT, Mallon EB, Franks NR. An agent-based model of collective nest choice by the ant Temnothorax albipennis. Anim Behav 2005; 70: 1023-1036.
16. Walker D, Wood S, Southgate J, Holcombe M, Smallwood R. An integrated agentmathematical model of the effect of intercellular signalling via the epidermal growth factor receptor on cell proliferation. J Theor Biol 2006; 242: 774-789.
17. Walker DC, Southgate J, Hill G, Holcombe M, Hose DR, Wood SM et al. The epitheliome: agent-based modelling of the social behaviour of cells. Biosystems 2004; 76: 89-100.
18. Kirschner DE, Chang ST, Riggs TW, Perry N, Linderman JJ. Toward a multiscale model of antigen presentation in immunity. Immunol Rev 2007; 216: 93-118.
19. Chavali AK, Gianchandani EP, Tung KS, Lawrence MB, Peirce SM, Papin JA. Characterizing emergent properties of immunological systems with multi-cellular rule-based computational modeling. Trends Immunol 2008; 29: 589-599.
20. Bauer AL, Beauchemin CAA, Perelson AS. Agent-based modeling of host-pathogen systems: the successes and challenges. Inf Sci 2009; 179: 1379-1389.
21. Meyer-Hermann ME, Maini PK. Cutting edge: back to 'one-way' germinal centers. J Immunol 2005; 174: 2489-2493.
22. Meyer-Hermann ME, Maini PK. Interpreting two-photon imaging data of lymphocyte motility. Phys Rev E Stat Nonlin Soft Matter Phys 2005; 71: 061912.
23. Riggs T, Walts A, Perry N, Bickle L, Lynch JN, Myers A et al. A comparison of random vs chemotaxis-driven contacts of T cells with dendritic cells during repertoire scanning. J Theor Biol 2008; 250: 732-751.
24. Zheng H, Jin B, Henrickson SE, Perelson AS, von Andrian UH, Chakraborty AK. How antigen quantity and quality determine T-cell decisions in lymphoid tissue. Mol Cell Biol 2008; 28: 4040-4051.
25. Bogle G, Dunbar PR. Simulating T-cell motility in the lymph node paracortex with a packed lattice geometry. Immunol Cell Biol 2008; 86: 676-687.
26. Crampin EJ, Halstead M, Hunter P, Nielsen P, Noble D, Smith N et al. Computational physiology and the Physiome Project. Exp Physiol 2004; 89: 1-26.
27. Hunter PJ. The IUPS Physiome Project: a framework for computational physiology. Prog Biophys Mol Biol 2004; 85: 551-569.
28. Angel CE, Chen CJ, Horlacher OC, Winkler S, John T, Browning J et al. Distinctive localization of antigen-presenting cells in human lymph nodes. Blood 2009; 113: 1257-1267.
29. Cyster JG. Chemokines, sphingosine-1-phosphate, and cell migration in secondary lymphoid organs. Annu Rev Immunol 2005; 23: 127-159.
30. Willard-Mack CL. Normal structure, function, and histology of lymph nodes. Toxicol Pathol 2006; 34: 409-424.
31. Germain RN, Stefanova I. The dynamics of T cell receptor signaling: complex orchestration and the key roles of tempo and cooperation. Annu Rev Immunol 1999; 17: 467-522.
32. Gunzer M, Schafer A, Borgmann S, Grabbe S, Zänker KS, Bröcker EB et al. Antigen presentation in extracellular matrix: interactions of T cells with dendritic cells are dynamic, short lived, and sequential. Immunity 2000; 13: 323-332.
33. Friedl P, Gunzer M. Interaction of T cells with APCs: the serial encounter model. Trends Immunol 2001; 22: 187-191.
34. Rachmilewitz J, Lanzavecchia A. A temporal and spatial summation model for T-cell activation: signal integration and antigen decoding. Trends Immunol 2002; 23: 592-595.
35. Faroudi M, Zaru R, Paulet P, Muller S, Valitutti S. Cutting edge: T lymphocyte activation by repeated immunological synapse formation and intermittent signaling. J Immunol 2003; 171: 1128-1132.
36. Celli S, Garcia Z, Bousso P. CD4 T cells integrate signals delivered during successive DC encounters in vivo. J Exp Med 2005; 202: 1271-1278.
37. Garcia Z, Pradelli E, Celli S, Beuneu H, Simon A, Bousso P. Competition for antigen determines the stability of T cell-dendritic cell interactions during clonal expansion. Proc Natl Acad Sci USA 2007; 104: 4553-4558.
38. Khanna KM, McNamara JT, Lefrancois L. In situ imaging of the endogenous CD8 T cell response to infection. Science 2007; 318: 116-120.
39. Iezzi G, Karjalainen K, Lanzavecchia A. The duration of antigenic stimulation determines the fate of naive and effector T cells. Immunity 1998; 8: 89-95.
40. Langenkamp A, Casorati G, Garavaglia C, Dellabona P, Lanzavecchia A, Sallusto F. T cell priming by dendritic cells: thresholds for proliferation, differentiation and death and intraclonal functional diversification. Eur J Immunol 2002; 32: 2046-2054.
41. Lanzavecchia A, Sallusto F. Dynamics of T lymphocyte responses: intermediates, effectors, and memory cells. Science 2000; 290: 92-97.
42. Lanzavecchia A, Sallusto F. Regulation of T cell immunity by dendritic cells. Cell 2001; 106: 263-266.
43. Lanzavecchia A, Sallusto F. Progressive differentiation and selection of the fittest in the immune response. Nat Rev Immunol 2002; 2: 982-987.
44. Mempel TR, Henrickson SE, Von Andrian UH. T-cell priming by dendritic cells in lymph nodes occurs in three distinct phases. Nature 2004; 427: 154-159.
45. Henrickson SE, von Andrian UH. Single-cell dynamics of T-cell priming. Curr Opin Immunol 2007; 19: 249-258.
46. Lo CG, Xu Y, Proia RL, Cyster JG. Cyclical modulation of sphingosine-1-phosphate receptor 1 surface expression during lymphocyte recirculation and relationship to lymphoid organ transit. J Exp Med 2005; 201: 291-301.
47. Smith ME, Ford WL. The recirculating lymphocyte pool of the rat: a systematic description of the migratory behaviour of recirculating lymphocytes. Immunology 1983; 49: 83-94.
48. Westermann J, Puskas Z, Pabst R. Blood transit and recirculation kinetics of lymphocyte subsets in normal rats. Scand J Immunol 1988; 28: 203-210.
49. Cahill RN, Frost H, Trnka Z. The effects of antigen on the migration of recirculating lymphocytes through single lymph nodes. J Exp Med 1976; 143: 870-888.
50. Catron DM, Itano AA, Pape KA, Mueller DL, Jenkins MK. Visualizing the first 50h of the primary immune response to a soluble antigen. Immunity 2004; 21: 341-347.
51. Hay JB, Hobbs BB. The flow of blood to lymph nodes and its relation to lymphocyte traffic and the immune response. J Exp Med 1977; 145: 31-44.
52. Soderberg KA, Payne GW, Sato A, Medzhitov R, Segal SS, Iwasaki A. Innate control of adaptive immunity via remodeling of lymph node feed arteriole. Proc Natl Acad Sci USA 2005; 102: 16315-16320.
53. Steeber DA, Erickson CM, Hodde KC, Albrecht RM. Vascular changes in popliteal lymph nodes due to antigen challenge in normal and lethally irradiated mice. Scanning Microsc 1987; 1: 831-839.
54. Chyou S, Ekland EH, Carpenter AC, Tzeng TC, Tian S, Michaud M et al. Fibroblast-type reticular stromal cells regulate the lymph node vasculature. J Immunol 2008; 181: 3887-3896.
55. Jain RK. Molecular regulation of vessel maturation. Nat Med 2003; 9: 685-693.
56. Webster B, Ekland EH, Agle LM, Chyou S, Ruggieri R, Lu TT. Regulation of lymph node vascular growth by dendritic cells. J Exp Med 2006; 203: 1903-1913.
57. Beltman JB, Maree AF, de Boer RJ. Spatial modelling of brief and long interactions between T cells and dendritic cells. Immunol Cell Biol 2007; 85: 306-314.
58. Beltman JB, Maree AF, Lynch JN, Miller MJ, de Boer RJ. Lymph node topology dictates T cell migration behavior. J Exp Med 2007; 204: 771-780.
59. Figge MT, Meyer-Hermann M. Geometrically repatterned immunological synapses uncover formation mechanisms. PLoS Comput Biol 2006; 2: e171.