MDCK cystogenesis driven by cell stabilization within computational analogues

PLoS Computational Biology

Volumn 7, Issue 4, 2011, Pages

  Engelberg, Jesse A ^a   Datta, Anirban ^b   Mostov, Keith E ^b   Hunt, C Anthony ^a,c  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c San Francisco   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL DEATH; CELL PROLIFERATION; COMPUTATION THEORY; MORPHOLOGY; POTTS MODEL;

CELL BEHAVIOURS; CULTURE SYSTEMS; EPITHELIAL MORPHOGENESIS; IN-SILICO; IN-VITRO; MADIN-DARBY CANINE KIDNEY CELLS; MADIN-DARBY CANINE KIDNEYS; ORGAN FUNCTIONS; SIMPLE++; TIGHTLY-COUPLED;

CELL CULTURE;

ANIMAL CELL; ARTICLE; CELL COUNT; CELL DEATH; CELL DIVISION; CELL FUNCTION; CELL GROWTH; CELL SIZE; COMPUTER MODEL; COMPUTER PROGRAM; CONTROLLED STUDY; CYSTOGENESIS; DISEASE COURSE; DOG; IN VITRO STUDY; KIDNEY CELL; KIDNEY CYST; KIDNEY EPITHELIUM; MOLECULAR STABILITY; NONHUMAN; PATHOGENESIS; PHENOTYPE; POLARIZATION; PROCESS MODEL; QUANTITATIVE ANALYSIS; STRUCTURE ANALYSIS; VALIDATION PROCESS; ANIMAL; APOPTOSIS; BIOLOGICAL MODEL; BIOLOGY; CELL ADHESION; CELL LINE; CELL NUCLEUS; COMPUTER SIMULATION; CULTURE TECHNIQUE; CYST; METABOLISM; METHODOLOGY; PATHOLOGY; TIGHT JUNCTION;

ANIMALS; APOPTOSIS; CELL ADHESION; CELL CULTURE TECHNIQUES; CELL DEATH; CELL LINE; CELL NUCLEUS; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; CYSTS; DOGS; MODELS, BIOLOGICAL; SOFTWARE; TIGHT JUNCTIONS;

EID: 79955559185     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1002030     Document Type: Article

References (39)

1. Kim SH, Debnath J, Mostov K, Park S, Hunt CA, (2009) A computational approach to resolve cell level contributions to early glandular epithelial cancer progression. BMC Syst Biol 3: 122.
2. Kim SH, Park S, Mostov K, Debnath J, Hunt CA, (2009) Computational investigation of epithelial cell dynamic phenotype in vitro. Theor Biol Med Model 6: 8.
3. Grant MR, Mostov KE, Tlsty TD, Hunt CA, (2006) Simulating properties of in vitro epithelial cell morphogenesis. PLoS Comput Biol 2: e129.
4. Gin E, Tanaka EM, Brusch L, (2010) A model for cyst lumen expansion and size regulation via fluid secretion. J Theor Biol 264: 1077-1088.
5. Wang AZ, Ojakian GK, Nelson WJ, (1990) Steps in the morphogenesis of a polarized epithelium. I. uncoupling the roles of cell-cell and cell-substratum contact in establishing plasma membrane polarity in multicellular epithelial (MDCK) cysts. J Cell Sci 95: 137-151.
6. Zheng Z, Zhu H, Wan Q, Liu J, Xiao Z, et al. (2010) LGN regulates mitotic spindle orientation during epithelial morphogenesis. J Cell Biol 189: 275-288.
7. O'Brien LE, Zegers MM, Mostov KE, (2002) Opinion: Building epithelial architecture: Insights from three-dimensional culture models. Nat Rev Mol Cell Biol 3: 531-537.
8. Martín-Belmonte F, Gassama A, Datta A, Yu W, Rescher U, et al. (2007) PTEN-mediated apical segregation of phosphoinositides controls epithelial morphogenesis through Cdc42. Cell 128: 383-397.
9. Martín-Belmonte F, Yu W, Rodriguez-Fraticelli AE, Ewald AJ, Werb Z, et al. (2008) Cell-polarity dynamics controls the mechanism of lumen formation in epithelial morphogenesis. Curr Biol 18: 507-513.
10. Lam TN, Hunt CA, (2009) Discovering plausible mechanistic details of hepatic drug interactions. Drug Metab Dispos 37: 237-246.
11. O'Brien LE, Jou TS, Pollack AL, Zhang Q, Hansen SH, et al. (2001) Rac1 orientates epithelial apical polarity through effects on basolateral laminin assembly. Nat Cell Biol 3: 831-838.
12. Campisi J, d'Adda di Fagagna F, (2007) Cellular senescence: When bad things happen to good cells. Nat Rev Mol Cell Biol 8: 729-740.
13. Wang Y, Liang Y, Vanhoutte PM, (2010) SIRT1 and AMPK in regulating mammalian senescence: A critical review and a working model. FEBS Lett. Dec 2. E-pub ahead of print. doi 10.1016/j.febslet.2010.11.047.
14. Tang J, Hunt CA, (2010) Identifying the rules of engagement enabling leukocyte rolling, activation, and adhesion. PLoS Comput Biol 6: e1000681.
15. Rejniak KA, Anderson AR, (2008) A computational study of the development of epithelial acini: I. sufficient conditions for the formation of a hollow structure. Bull Math Biol 70: 677-712.
16. Rejniak KA, Wang SE, Bryce NS, Chang H, Parvin B, et al. (2010) Linking changes in epithelial morphogenesis to cancer mutations using computational modeling. PLoS Comput Biol 6: e1000900.
17. Lin HH, Yang TP, Jiang ST, Yang HY, Tang MJ, (1999) Bcl-2 overexpression prevents apoptosis-induced Madin-Darby canine kidney simple epithelial cyst formation. Kidney Int 55: 168-178.
18. Yu W, Fang X, Ewald A, Wong K, Hunt CA, et al. (2007) Formation of cysts by alveolar type II cells in three-dimensional culture reveals a novel mechanism for epithelial morphogenesis. Mol Biol Cell 18: 1693-1700.
19. Kim SH, Yu W, Mostov K, Matthay MA, Hunt CA, (2009) A computational approach to understand in vitro alveolar morphogenesis. PLoS One 4: e4819.
20. Ferrari A, Veligodskiy A, Berge U, Lucas MS, Kroschewski R, (2008) ROCK-mediated contractility, tight junctions and channels contribute to the conversion of a preapical patch into apical surface during isochoric lumen initiation. J Cell Sci 121: 3649-3663.
21. Ewald AJ, Brenot A, Duong M, Chan BS, Werb Z, (2008) Collective epithelial migration and cell rearrangements drive mammary branching morphogenesis. Dev Cell 14: 570-581.
22. Paszek MJ, Zahir N, Johnson KR, Lakins JN, Rozenberg GI, et al. (2005) Tensional homeostasis and the malignant phenotype. Cancer Cell 8: 241-254.
23. Wells RG, (2008) The role of matrix stiffness in regulating cell behavior. Hepatology 47: 1394-1400.
24. Marmaras A, Berge U, Ferrari A, Kurtcuoglu V, Poulikakos D, et al. (2010) A mathematical method for the 3D analysis of rotating deformable systems applied on lumen-forming MDCK cell aggregates. Cytoskeleton 67: 224-240.
25. Hunt CA, Ropella GE, Lam TN, Tang J, Kim SH, et al. (2009) At the biological modeling and simulation frontier. Pharm Res 26: 2369-2400.
26. Yu W, Datta A, Leroy P, O'Brien LE, Mak G, et al. (2005) β1-integrin orients epithelial polarity via Rac1 and laminin. Mol Biol Cell 16: 433-445.
27. Kim M, Datta A, Brakeman P, Yu W, Mostov KE, (2007) Polarity proteins PAR6 and aPKC regulate cell death through GSK-3β in 3D epithelial morphogenesis. J Cell Sci 120: 2309-2317.
28. Cickovski TM, Huang C, Chaturvedi R, Glimm T, Hentschel HG, et al. (2005) A framework for three-dimensional simulation of morphogenesis. IEEE/ACM Trans Comput Biol Bioinform 2: 273-288.
29. Engelberg JA, Ropella GE, Hunt CA, (2008) Essential operating principles for tumor spheroid growth. BMC Syst Biol 2: 110.
30. Kim SH, Matthay MA, Mostov K, Hunt CA, (2010) Simulation of lung alveolar epithelial wound healing in vitro. J R Soc Interface 7: 1157-1170.
31. Lam TN, Hunt CA, (2010) Mechanistic insight from in silico pharmacokinetic experiments: Roles of P-glycoprotein, Cyp3A4 enzymes, and microenvironments. J Pharmacol Exp Ther 332: 398-412.
32. Swat MH, Hester SD, Heiland RW, Zaitlen BL, Glazier JA, et al. (2010) CompuCell3D manual, version 3.4.2. 2010 123.
33. Glazier JA, Balter A, Popławski NJ, (2007) Magnetization to morphogenesis: A brief history of the Glazier-Graner-Hogeweg model. In: Rejniak KA, editors. Single-Cell-Based Models in Biology and Medicine Basel Birkhäuser pp. 79-106.
34. Graner F, Glazier JA, (1992) Simulation of biological cell sorting using a two-dimensional extended Potts model. Phys Rev Lett 69: 2013-2016.
35. Nathke IS, Hinck L, Swedlow JR, Papkoff J, Nelson WJ, (1994) Defining interactions and distributions of cadherin and catenin complexes in polarized epithelial cells. J Cell Biol 125: 1341-1352.
36. Collins JA, Schandi CA, Young KK, Vesely J, Willingham MC, (1997) Major DNA fragmentation is a late event in apoptosis. J Histochem Cytochem 45: 923-934.
37. Gavrieli Y, Sherman Y, Ben-Sasson SA, (1992) Identification of programmed cell death in situ via specific labeling of nuclear DNA fragmentation. J Cell Biol 119: 493-501.
38. Tyas L, Brophy VA, Pope A, Rivett AJ, Tavare JM, (2000) Rapid caspase-3 activation during apoptosis revealed using fluorescence-resonance energy transfer. EMBO Rep 1: 266-270.
39. Galle J, Hoffman M, Aust G, (2009) From single cells to tissue architecture-a bottom-up approach to modelling the spatio-temporal organisation of complex multi-cellular systems. J Math Biol 58: 261-283.