The ecological basis of morphogenesis: Branching patterns in swarming colonies of bacteria

New Journal of Physics

Volumn 16, Issue , 2014, Pages

  Deng, Pan ^a   De Vargas Roditi, Laura ^a   Van Ditmarsch, Dave ^a   Xavier, Joao B ^a  

^a MEMORIAL SLOAN KETTERING CANCER CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL COLONIES; BRANCHING MORPHOGENESIS; COLONIES OF BACTERIA; ECOLOGICAL MODELING; EXPERIMENTAL MODELING; LOCAL INTERACTIONS; POPULATION DISPERSAL; PSEUDOMONAS AERUGINOSA;

BACTERIA; ECOLOGY; MATHEMATICAL MODELS; MORPHOLOGY;

COMPUTER SIMULATION;

EID: 84892684152     PISSN: 13672630     EISSN: None     Source Type: Journal    
DOI: 10.1088/1367-2630/16/1/015006     Document Type: Article

References (52)

1. Affolter M, Zeller R and Caussinus E 2009 Tissue remodelling through branching morphogenesis Nature Rev. Mol. Cell Biol. 10 831-42
2. Ben-Jacob E, Coffey D S and Levine H 2012 Bacterial survival strategies suggest rethinking cancer cooperativity Trends Microbiol. 20 403-10
3. Boyle K E, Heilmann S, van Ditmarsch D and Xavier J B 2013 Exploiting social evolution in biofilms Curr. Opin. Microbiol. 16 207-12
4. Caiazza N C, Shanks R M Q and O'Toole G A 2005 Rhamnolipids modulate swarming motility patterns of Pseudomonas aeruginosa J. Bacteriol. 187 7351-61 (Pubitemid 41507791)
5. Cellurale C, Girnius N, Jiang F, Cavanagh-Kyros J, Lu S, Garlick D S, Mercurio A M and Davis R J 2012 Role of JNK in mammary gland development and breast cancer Cancer Res. 72 472-81
6. Chen K W and Pienta K J 2011 Modeling invasion of metastasizing cancer cells to bone marrow utilizing ecological principles Theor. Biol. Med. Modelling 8 36
7. Chiu J M, Li S, Li A, Po B, Zhang R, Shin P K and Qiu J W 2012 Bacteria associated with skeletal tissue growth anomalies in the coral Platygyra carnosus FEMS Microbiol. Ecol. 79 380-91
8. Cohen I, Golding I, Kozlovsky Y, Ben-Jacob E and Ron I G 1999 Continuous and discrete models of cooperation in complex bacterial colonies Fractals 7 235-47 (Pubitemid 129619640)
9. Costerton J W, Stewart P S and Greenberg E P 1999 Bacterial biofilms: a common cause of persistent infections Science 284 1318-22 (Pubitemid 29289651)
10. Crespi B and Summers K 2005 Evolutionary biology of cancer Trends Ecol. Evol. 20 545-52 (Pubitemid 41323711)
11. Davies D G, Parsek M R, Pearson J P, Iglewski B H, Costerton J W and Greenberg E P 1998 The involvement of cell-to-cell signals in the development of a bacterial biofilm Science 280 295-8 (Pubitemid 28178075)
12. De Smet I and Jürgens G 2007 Patterning the axis in plants - auxin in control Curr. Opin. Genet. Dev. 17 337-43 (Pubitemid 47238604)
13. de Vargas Roditi L, Boyle K E and Xavier J B 2013 Multilevel selection analysis of a microbial social trait Mol. Syst. Biol. 9 684
14. Deziel E, Lepine F, Milot S and Villemur R 2003 rhlA is required for the production of a novel biosurfactant promoting swarming motility in Pseudomonas aeruginosa: 3-(3-hydroxyalkanoyloxy)alkanoic acids (HAAs), the precursors of rhamnolipids Microbiology 149 2005-13 (Pubitemid 37038406)
15. Du H, Xu Z, Anyan M, Kim O, Leevy W M, Shrout J D and Alber M 2012 High density waves of the bacterium Pseudomonas aeruginosa in propagating swarms result in efficient colonization of surfaces Biophys. J. 103 601-9
16. Du H, Xu Z, Shrout J D and Alber M 2011 Multiscale modeling of Pseudomonas aeruginosa swarming Math. Models Methods Appl. Sci. 21 939-54
17. Fauvart M, Phillips P, Bachaspatimayum D, Verstraeten N, Fransaer J, Michiels J and Vermant J 2012 Surface tension gradient control of bacterial swarming in colonies of Pseudomonas aeruginosa Soft Matter 8 70-6
18. Fujikawa H and Matsushita M 1991 Bacterial fractal growth in the concentration field of nutrient J. Phys. Soc. Japan 60 88-94
19. Gerlee P and Anderson A 2008 A Hybrid cellular automaton model of clonal evolution in cancer: the emergence of the glycolytic phenotype J. Theor. Biol. 250 705-22
20. Greaves M and Maley C C 2012 Clonal evolution in cancer Nature 481 306-13
21. Griffin A S, West S A and Buckling A 2004 Cooperation and competition in pathogenic bacteria Nature 430 1024-7 (Pubitemid 39128386)
22. Hanahan D and Weinberg R A 2011 Hallmarks of cancer: the next generation Cell 144 646-74
23. Helmuth B S T, Sebens K P and Daniel T L 1997 Morphological variation in coral aggregations: branch spacing and mass flux to coral tissues J. Exp. Mar. Biol. Eco. 209 233-59 (Pubitemid 27087734)
24. Kawasaki K, Mochizuki A, Matsushita M, Umeda T and Shigesada N 1997 Modeling spatio-temporal patterns generated by Bacillus subtilis J. Theor. Biol. 188 177-85 (Pubitemid 27464187)
25. Kohler T, Curty L K, Barja F, van Delden C and Pechere J C 2000 Swarming of Pseudomonas aeruginosa is dependent on cell-to-cell signaling and requires flagella and pili J. Bacteriol. 182 5990-6
26. Kot M, Lewis M A and vandenDriessche P 1996 Dispersal data and the spread of invading organisms Ecology 77 2027-42
27. Lambert G, Estévez-Salmeron L, Oh S, Liao D, Emerson B M, Tlsty T D and Austin R H 2011 An analogy between the evolution of drug resistance in bacterial communities and malignant tissues Nature Rev. Cancer 11 375-82
28. Lander A D 2011 Pattern, Growth, and Control Cell 144 955-69
29. Levin S A 1992 The problem of pattern and scale in ecology Ecology 73 1943-67 (Pubitemid 23399192)
30. Lindstrom T, Hakansson N and Wennergren U 2011 The shape of the spatial kernel and its implications for biological invasions in patchy environments Proc. R. Soc. Lond. B 278 1564-71
31. Lindström T, Håkansson N, Westerberg L and Wennergren U 2008 Splitting the tail of the displacement kernel shows the unimportance of kurtosis Ecology 89 1784-90
32. Matsushita M and Fujikawa H 1990 Diffusion-limited growth in bacterial colony formation Physica A 168 498-506
33. Merlo L M F, Pepper J W, Reid B J and Maley C C 2006 Cancer as an evolutionary and ecological process Nature Rev. Cancer 6 924-35 (Pubitemid 44862677)
34. Metzger R J, Klein O D, Martin G R and Krasnow M A 2008 The branching programme of mouse lung development Nature 453 745-50 (Pubitemid 351793786)
35. Morelli L G, Uriu K, Ares S and Oates A C 2012 Computational approaches to developmental patterning Science 336 187-91
36. Nadell C D, Foster K R and Xavier J B 2010 Emergence of spatial structure in cell groups and the evolution of cooperation PLoS Comput. Biol. 6 e1000716
37. Nelson C M, VanDuijn M M, Inman J L, Fletcher D A and Bissell M J 2006 Tissue geometry determines sites of mammary branching morphogenesis in organotypic cultures Science 314 298-300 (Pubitemid 44571974)
38. Netotea S, Bertani I, Steindler L, Kerenyi A, Venturi V and Pongor S 2009 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. 4 6
39. Ochoa-Espinosa A and Affolter M 2012 Branching morphogenesis: from cells to organs and back Cold Spring Harb. Perspect. Biol. 4 a008243
40. Orlando P A, Gatenby R A and Brown J S 2013 Tumor evolution in space: the effects of competition colonization tradeoffs on tumor invasion dynamics Front. Oncol. 3 45
41. O'Toole G, Kaplan H B and Kolter R 2000 Biofilm formation as microbial development Annu. Rev. Microbiol. 54 49-79
42. Picioreanu C, van Loosdrecht M C M and Heijnen J J 1998 Mathematical modeling of biofilm structure with a hybrid differential-discrete cellular automaton approach Biotechnol. Bioeng. 58 101-16 (Pubitemid 28103346)
43. Rashid M H and Kornberg A 2000 Inorganic polyphosphate is needed for swimming, swarming, and twitching motilities of Pseudomonas aeruginosa Proc. Natl Acad. Sci. USA 97 4885-90 (Pubitemid 30238652)
44. Rietkerk M, Dekker S C, de Ruiter P C and van de Koppel J 2004 Self-organized patchiness and catastrophic shifts in ecosystems Science 305 1926-9 (Pubitemid 39287984)
45. Schneider C A, Rasband W S and Eliceiri K W 2012 NIH Image to ImageJ: 25 years of image analysis Nature Methods 9 671-5
46. Sherman T F 1981 On connecting large vessels to small. The meaning of Murray's law J. Gen. Physiol. 78 431-53 (Pubitemid 11020903)
47. Tero A, Takagi S, Saigusa T, Ito K, Bebber D P, Fricker M D, Yumiki K, Kobayashi R and Nakagaki T 2010 Rules for biologically inspired adaptive network design Science 327 439-42
48. Tremblay J, Richardson A P, Lepine F and Deziel E 2007 Self-produced extracellular stimuli modulate the Pseudomonas aeruginosa swarming motility behaviour Environ. Microbiol. 9 2622-30 (Pubitemid 47366672)
49. Turing A M 1952 The chemical basis of morphogenesis Phil. Trans. R. Soc. B 237 37-72
50. van Ditmarsch D, Boyle K E, Sakhtah H, Oyler J E, Nadell C D, Deziel E, Dietrich L E and Xavier J B 2013 Convergent evolution of hyperswarming leads to impaired biofilm formation in pathogenic bacteria Cell Rep. 4 697-708
51. Xavier J B, Kim W and Foster K R 2011 A molecular mechanism that stabilizes cooperative secretions in Pseudomonas aeruginosa Mol. Microbiol. 79 166-79
52. Xavier J B, Martinez-Garcia E and Foster K R 2009 Social evolution of spatial patterns in bacterial biofilms: when conflict drives disorder Am. Naturalist 174 1-12