Aggregation-fragmentation model of robust concentration gradient formation

Physical Review E - Statistical, Nonlinear, and Soft Matter Physics

Volumn 91, Issue 2, 2015, Pages

  Saunders, Timothy E ^a,b,c  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^b NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^c INSTITUTE OF MOLECULAR AND CELL BIOLOGY   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

CONDENSED MATTER PHYSICS;

AGGREGATION-FRAGMENTATION PROCESS; CONCENTRATION GRADIENTS; FISSION YEAST; FRAGMENTATION MODELS; MULTICELLULAR SYSTEMS; SIGNALING MOLECULES; SPATIAL SCALE; THEORETICAL MODELING;

MOLECULES;

BIOLOGICAL MODEL; DIFFUSION; PHYSIOLOGY; SCHIZOSACCHAROMYCES; STATISTICS; TIME;

DIFFUSION; MODELS, BIOLOGICAL; SCHIZOSACCHAROMYCES; STOCHASTIC PROCESSES; TIME FACTORS;

EID: 84922384321     PISSN: 15393755     EISSN: 15502376     Source Type: Journal    
DOI: 10.1103/PhysRevE.91.022704     Document Type: Article

References (54)

1. L. Wolpert, J. Theor. Biol. 25, 1 (1969). JTBIAP 0022-5193 10.1016/S0022-5193(69)80016-0
2. P. Muller, K. W. Rogers, S. R. Yu, M. Brand, and A. F. Schier, Development 140, 1621 (2013). DEVPED 0950-1991 10.1242/dev.083519
3. K. W. Rogers and A. F. Schier, Ann. Rev. Cell Dev. Biol. 27, 377 (2011). ARDBF8 1081-0706 10.1146/annurev-cellbio-092910-154148
4. A. Kicheva, P. Pantazis, T. Bollenbach, Y. Kalaidzidis, T. Bittig, F. Julicher, and M. Gonzalez-Gaitan, Science 315, 521 (2007). SCIEAS 0036-8075 10.1126/science.1135774
5. T. Gregor, E. F. Wieschaus, A. P. McGregor, W. Bialek, and D. W. Tank, Cell 130, 141 (2007). CELLB5 0092-8674 10.1016/j.cell.2007.05.026
6. N. Balaskas, A. Ribeiro, J. Panovska, E. Dessaud, N. Sasai, K. M. Page, J. Briscoe, and V. Ribes, Cell 148, 273 (2012). CELLB5 0092-8674 10.1016/j.cell.2011.10.047
7. M. Haskel-Ittah, D. Ben-Zvi, M. Branski-Arieli, E. D. Schejter, B.-Z. Shilo, and N. Barkai, Cell 150, 1016 (2012). CELLB5 0092-8674 10.1016/j.cell.2012.06.044
8. A. Warmflash, Q. Zhang, B. Sorre, A. Vonica, E. D. Siggia, and A. H. Brivanlou, Proc. Natl. Acad. Sci. U.S.A. 109, E1947 (2012). PNASA6 0027-8424 10.1073/pnas.1207607109
9. A. Eldar, D. Rosin, B. Z. Shilo, and N. Barkai, Dev. Cell 5, 635 (2003). 1534-5807 10.1016/S1534-5807(03)00292-2
10. T. Bollenbach, K. Kruse, P. Pantazis, M. Gonzalez-Gaitan, and F. Julicher, Phys. Rev. Lett. 94, 018103 (2005). PRLTAO 0031-9007 10.1103/PhysRevLett.94.018103
11. J. L. England and J. Cardy, Phys. Rev. Lett. 94, 078101 (2005). PRLTAO 0031-9007 10.1103/PhysRevLett.94.078101
12. M. Coppey, A. M. Berezhkovskii, Y. Kim, A. N. Boettiger, and S. Y. Shvartsman, Dev. Biol. 312, 623 (2007). DEBIAO 0012-1606 10.1016/j.ydbio.2007.09.058
13. G. H. Wadhams and J. P. Armitage, Nat. Rev. Mol. Cell Biol. 5, 1024 (2004). NRMCBP 1471-0072 10.1038/nrm1524
14. E. E. Griffin, D. J. Odde, and G. Seydoux, Cell 146, 955 (2011). CELLB5 0092-8674 10.1016/j.cell.2011.08.012
15. S. G. Martin and M. Berthelot-Grosjean, Nature 459, 852 (2009). NATUAS 0028-0836 10.1038/nature08054
16. J. B. Moseley, A. Mayeux, A. Paoletti, and P. Nurse, Nature 459, 857 (2009). NATUAS 0028-0836 10.1038/nature08074
17. A. L. Marston and J. Errington, Molec. Microbiol. 33, 84 (1999). MOMIEE 0950-382X 10.1046/j.1365-2958.1999.01450.x
18. J. R. Robbins, D. Monack, S. J. McCallum, A. Vegas, E. Pham, M. B. Goldberg, and J. A. Theriot, Molec. Microbiol. 41, 861 (2001). MOMIEE 0950-382X 10.1046/j.1365-2958.2001.02552.x
19. M. Thanbichler and L. Shapiro, Cell 126, 147 (2006). CELLB5 0092-8674 10.1016/j.cell.2006.05.038
20. C. G. Tsokos, B. S. Perchuk, and M. T. Laub, Dev. Cell 20, 329 (2011). 1534-5807 10.1016/j.devcel.2011.01.007
21. D. Kiekebusch and M. Thanbichler, Trends Microbiol. 22, 65 (2014). 10.1016/j.tim.2013.11.005
22. G. C. Brown and B. N. Kholodenko, FEBS Lett. 457, 452 (1999). FEBLAL 0014-5793 10.1016/S0014-5793(99)01058-3
23. J. Meyers, J. Craig, and D. J. Odde, Curr. Biol. 16, 1685 (2006). CUBLE2 0960-9822 10.1016/j.cub.2006.07.056
24. B. N. Kholodenko, Nat. Rev. Mol. Cell Biol. 7, 165 (2006). NRMCBP 1471-0072 10.1038/nrm1838
25. B. Hu, W. Chen, W. J. Rappel, and H. Levine, Phys. Rev. Lett. 105, 048104 (2010). PRLTAO 0031-9007 10.1103/PhysRevLett.105.048104
26. C. Tropini, N. Rabbani, and K. C. Huang, BMC Biophys. 5, 17 (2012). 2046-1682 10.1186/2046-1682-5-17
27. M. Howard, Trends Cell Biol. 22, 311 (2012). TCBIEK 0962-8924 10.1016/j.tcb.2012.03.002
28. J. Das, M. Ho, J. Zikherman, C. Govern, M. Yang, A. Weiss, A. K. Chakraborty, and J. P. Roose, Cell 136, 337 (2009). CELLB5 0092-8674 10.1016/j.cell.2008.11.051
29. T. E. Saunders, K. Z. Pan, A. Angel, Y. Guan, J. V. Shah, M. Howard, and F. Chang, Dev. Cell 22, 558 (2012). 1534-5807 10.1016/j.devcel.2012.01.001
30. S. L. Veatch, E. N. Chiang, P. Sengupta, D. A. Holowka, and B. A. Baird, J. Phys. Chem. B 116, 6923 (2012). JPCBFK 1520-6106 10.1021/jp300197p
31. C. Lee, H. Zhang, A. E. Baker, P. Occhipinti, M. E. Borsuk, and A. S. Gladfelter, Dev. Cell 25, 572 (2013). 1534-5807 10.1016/j.devcel.2013.05.007
32. J. Das, M. Kardar, and A. K. Chakraborty, J. Chem. Phys. 130, 245102 (2009). JCPSA6 0021-9606 10.1063/1.3149861
33. J. M. Ball, J. Carr, and O. Penrose, Commun. Math. Phys. 104, 657 (1986). CMPHAY 0010-3616 10.1007/BF01211070
34. J. A. D. Wattis, Physica D 222, 1 (2006). PDNPDT 0167-2789 10.1016/j.physd.2006.07.024
35. N. N. Padte, S. G. Martin, M. Howard, and F. Chang, Curr. Biol. 16, 2480 (2006). CUBLE2 0960-9822 10.1016/j.cub.2006.11.024
36. P. Laurençot and S. Mischler, Arch. Ration. Mech. Anal. 162, 45 (2002). AVRMAW 0003-9527 10.1007/s002050100186
37. J. A. Cañizo, L. Desvillettes, and K. Fellner, Ann. Inst. H. Poincaré An. 27, 639 (2010). 0294-1449 10.1016/j.anihpc.2009.10.001
38. L. Desvillettes and K. Fellner, SIAM J. Math. Anal. 41, 2315 (2010). SJMAAH 0036-1410 10.1137/090752602
39. B.-A. Truong Quang, M. Mani, O. Markova, T. Lecuit, and P.-F. Lenne, Curr. Biol. 23, 2197 (2013). CUBLE2 0960-9822 10.1016/j.cub.2013.09.015
40. Y. Gambin, R. Lopez-Esparza, M. Reffay, E. Sierecki, N. S. Gov, M. Genest, R. S. Hodges, and W. Urbach, Proc. Natl. Acad. Sci. U.S.A. 103, 2098 (2006). PNASA6 0027-8424 10.1073/pnas.0511026103
41. P. G. Saffman and M. Delbruck, Proc. Natl. Acad. Sci. U.S.A. 72, 3111 (1975). PNASA6 0027-8424 10.1073/pnas.72.8.3111
42. We have performed Gillespie simulations of nondiffusing clusters using the parameters for cluster dynamics presented in Fig. 1 and the lifetimes and maximum cluster size of the clusters are consistent with [29]. However, detailed simulations of cluster dynamics, which include diffusion, are beyond the scope of this work.
43. F. He, T. E. Saunders, Y. Wen, D. Cheung, R. Jiao, P. R. ten Wolde, M. Howard, and J. Ma, Biophys. J. 99, 697 (2010). BIOJAU 0006-3495 10.1016/j.bpj.2010.04.073
44. F. Liu, A. H. Morrison, and T. Gregor, Proc. Natl. Acad. Sci. U.S.A. 110, 6724 (2013). PNASA6 0027-8424 10.1073/pnas.1220912110
45. J. P. Bothma, H. G. Garcia, E. Esposito, G. Schlissel, T. Gregor, and M. Levine, Proc. Natl. Acad. Sci. U.S.A. 111, 10598 (2014). PNASA6 0027-8424 10.1073/pnas.1410022111
46. F. Tostevin, P. R. ten Wolde, and M. Howard, PLoS Comput. Biol. 3, e78 (2007). 1553-734X 10.1371/journal.pcbi.0030078
47. T. E. Saunders and M. Howard, Phys. Rev. E 80, 041902 (2009). PLEEE8 1539-3755 10.1103/PhysRevE.80.041902
48. S. A. Rincon, P. Bhatia, C. Bicho, M. Guzman-Vendrell, V. Fraisier, W. E. Borek, F. d. L. Alves, F. Dingli, D. Loew, J. Rappsilber, K. E. Sawin, S. G. Martin, and A. Paoletti, J. Cell Biol. 206, 61 (2014). JCLBA3 0021-9525 10.1083/jcb.201311097
49. M. Vilela, J. J. Morgan, and P. A. Lindahl, PLoS Comput. Biol. 6, e1001036 (2010). 1553-7358 10.1371/journal.pcbi.1001036
50. F. Tostevin, Biophys. J. 100, 294 (2011). BIOJAU 0006-3495 10.1016/j.bpj.2010.11.046
51. K. Z. Pan, T. E. Saunders, I. Flor-Parra, M. Howard, and F. Chang, eLife 3, e02040 (2014). 2050-084X 10.7554/eLife.02040
52. A. Jilkine, S. B. Angenent, L. F. Wu, and S. J. Altschuler, PLoS Comput. Biol. 7, e1002271 (2011). 1553-7358 10.1371/journal.pcbi.1002271
53. Manu, S. Surkova, A. V. Spirov, V. V. Gursky, H. Janssens, A.-R. Kim, O. Radulescu, C. E. Vanario-Alonso, D. H. Sharp, M. Samsonova, and J. Reinitz, PLoS Biol. 7, e1000049 (2009). 1544-9173 10.1371/journal.pbio.1000049
54. A.-C. Gradilla and I. Guerrero, Curr. Opin. Genet. Dev. 23, 363 (2013). COGDET 0959-437X 10.1016/j.gde.2013.04.011