IDEAS home Printed from https://ideas.repec.org/a/eee/phsmap/v260y1998i3p510-554.html
   My bibliography  Save this article

Studies of bacterial branching growth using reaction–diffusion models for colonial development

Author

Listed:
  • Golding, Ido
  • Kozlovsky, Yonathan
  • Cohen, Inon
  • Ben-Jacob, Eshel

Abstract

Various bacterial strains exhibit colonial branching patterns during growth on poor substrates. These patterns reflect bacterial cooperative self-organization and cybernetic processes of communication, regulation and control employed during colonial development. One method of modeling is the continuous, or coupled reaction–diffusion approach, in which continuous time evolution equations describe the bacterial density and the concentration of the relevant chemical fields. In the context of branching growth, this idea has been pursued by a number of groups. We present an additional model which includes a lubrication fluid excreted by the bacteria. We also add fields of chemotactic agents to the other models. We then present a critique of this whole enterprise with focus on the models’ potential for revealing new biological features.

Suggested Citation

  • Golding, Ido & Kozlovsky, Yonathan & Cohen, Inon & Ben-Jacob, Eshel, 1998. "Studies of bacterial branching growth using reaction–diffusion models for colonial development," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 260(3), pages 510-554.
    • Handle: RePEc:eee:phsmap:v:260:y:1998:i:3:p:510-554
    DOI: 10.1016/S0378-4371(98)00345-8
    as

    Download full text from publisher

    File URL: http://www.sciencedirect.com/science/article/pii/S0378437198003458
    Download Restriction: Full text for ScienceDirect subscribers only. Journal offers the option of making the article available online on Science direct for a fee of $3,000
    File URL: https://libkey.io/10.1016/S0378-4371(98)00345-8?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    References listed on IDEAS

    as
    1. Ben-Jacob, Eshel & Shmueli, Haim & Shochet, Ofer & Tenenbaum, Adam, 1992. "Adaptive self-organization during growth of bacterial colonies," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 187(3), pages 378-424.
    2. Ben-Jacob, Eshel & Tenenbaum, Adam & Shochet, Ofer & Avidan, Orna, 1994. "Holotransformations of bacterial colonies and genome cybernetics," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 202(1), pages 1-47.
    3. Ben-Jacob, Eshel & Cohen, Inon & Czirók, András & Vicsek, Tamás & Gutnick, David L., 1997. "Chemomodulation of cellular movement, collective formation of vortices by swarming bacteria, and colonial development," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 238(1), pages 181-197.
    4. David A. Kessler & Herbert Levine, 1998. "Fluctuation-induced diffusive instabilities," Nature, Nature, vol. 394(6693), pages 556-558, August.
    5. Matsushita, Mitsugu & Fujikawa, Hiroshi, 1990. "Diffusion-limited growth in bacterial colony formation," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 168(1), pages 498-506.
    6. Matsushita, M. & Wakita, J. & Itoh, H. & Ràfols, I. & Matsuyama, T. & Sakaguchi, H. & Mimura, M., 1998. "Interface growth and pattern formation in bacterial colonies," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 249(1), pages 517-524.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Leyva, J. Francisco & Málaga, Carlos & Plaza, Ramón G., 2013. "The effects of nutrient chemotaxis on bacterial aggregation patterns with non-linear degenerate cross diffusion," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(22), pages 5644-5662.
    2. Lin Chen & Javad Noorbakhsh & Rhys M Adams & Joseph Samaniego-Evans & Germaine Agollah & Dmitry Nevozhay & Jennie Kuzdzal-Fick & Pankaj Mehta & Gábor Balázsi, 2014. "Two-Dimensionality of Yeast Colony Expansion Accompanied by Pattern Formation," PLOS Computational Biology, Public Library of Science, vol. 10(12), pages 1-14, December.
    3. Ben-Jacob, Eshel & Cohen, Inon & Golding, Ido & Gutnick, David L. & Tcherpakov, Marianna & Helbing, Dirk & Ron, Ilan G., 2000. "Bacterial cooperative organization under antibiotic stress," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 282(1), pages 247-282.
    4. Mansour, M.B.A., 2007. "Traveling wave solutions of a reaction–diffusion model for bacterial growth," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 383(2), pages 466-472.
    5. Ron, Ilan G. & Golding, Ido & Lifsitz-Mercer, Beatrice & Ben-Jacob, Eshel, 2003. "Bursts of sectors in expanding bacterial colonies as a possible model for tumor growth and metastases," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 320(C), pages 485-496.
    6. Samvel Sarukhanian & Anna Maslovskaya & Christina Kuttler, 2023. "Three-Dimensional Cellular Automaton for Modeling of Self-Similar Evolution in Biofilm-Forming Bacterial Populations," Mathematics, MDPI, vol. 11(15), pages 1-18, July.
    7. Banitz, Thomas & Fetzer, Ingo & Johst, Karin & Wick, Lukas Y. & Harms, Hauke & Frank, Karin, 2011. "Assessing biodegradation benefits from dispersal networks," Ecological Modelling, Elsevier, vol. 222(14), pages 2552-2560.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Ben-Jacob, Eshel & Cohen, Inon & Golding, Ido & Gutnick, David L. & Tcherpakov, Marianna & Helbing, Dirk & Ron, Ilan G., 2000. "Bacterial cooperative organization under antibiotic stress," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 282(1), pages 247-282.
    2. Ben-Jacob, Eshel, 1998. "Bacterial wisdom, Gödel's theorem and creative genomic webs," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 248(1), pages 57-76.
    3. Ron, Ilan G. & Golding, Ido & Lifsitz-Mercer, Beatrice & Ben-Jacob, Eshel, 2003. "Bursts of sectors in expanding bacterial colonies as a possible model for tumor growth and metastases," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 320(C), pages 485-496.
    4. Cohen, Inon & Ron, Ilan G & Ben-Jacob, Eshel, 2000. "From branching to nebula patterning during colonial development of the Paenibacillus alvei bacteria," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 286(1), pages 321-336.
    5. Ben-Jacob, Eshel & Cohen, Inon & Czirók, András & Vicsek, Tamás & Gutnick, David L., 1997. "Chemomodulation of cellular movement, collective formation of vortices by swarming bacteria, and colonial development," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 238(1), pages 181-197.
    6. Csahók, Zoltán & Czirók, András, 1997. "Hydrodynamics of bacterial motion," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 243(3), pages 304-318.
    7. Muzzio, Nicolás E. & Horowitz, Claudio M. & Azzaroni, Omar & Moya, Sergio E. & Pasquale, Miguel A., 2021. "Tilted mammalian cell colony propagation dynamics on patterned substrates," Chaos, Solitons & Fractals, Elsevier, vol. 146(C).
    8. Ben-Jacob, Eshel, 1998. "The cybernetic genome," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 249(1), pages 407-414.
    9. Leyva, J. Francisco & Málaga, Carlos & Plaza, Ramón G., 2013. "The effects of nutrient chemotaxis on bacterial aggregation patterns with non-linear degenerate cross diffusion," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(22), pages 5644-5662.
    10. Mansour, M.B.A., 2007. "Traveling wave solutions of a reaction–diffusion model for bacterial growth," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 383(2), pages 466-472.
    11. Ben-Jacob, Eshel, 1998. "Bacterial wisdom," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 249(1), pages 553-557.
    12. Badoual, M. & Derbez, P. & Aubert, M. & Grammaticos, B., 2009. "Simulating the migration and growth patterns of Bacillus subtilis," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 388(4), pages 549-559.
    13. Lin Chen & Javad Noorbakhsh & Rhys M Adams & Joseph Samaniego-Evans & Germaine Agollah & Dmitry Nevozhay & Jennie Kuzdzal-Fick & Pankaj Mehta & Gábor Balázsi, 2014. "Two-Dimensionality of Yeast Colony Expansion Accompanied by Pattern Formation," PLOS Computational Biology, Public Library of Science, vol. 10(12), pages 1-14, December.
    14. Banitz, Thomas & Fetzer, Ingo & Johst, Karin & Wick, Lukas Y. & Harms, Hauke & Frank, Karin, 2011. "Assessing biodegradation benefits from dispersal networks," Ecological Modelling, Elsevier, vol. 222(14), pages 2552-2560.
    15. Chuan Xue & Elena O Budrene & Hans G Othmer, 2011. "Radial and Spiral Stream Formation in Proteus mirabilis Colonies," PLOS Computational Biology, Public Library of Science, vol. 7(12), pages 1-11, December.
    16. Ruzicka, Marek C. & Fridrich, Mirek & Burkhard, Martin, 1995. "A bacterial colony is not self-similar," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 216(4), pages 382-385.
    17. Ben-Jacob, Eshel & Tenenbaum, Adam & Shochet, Ofer & Avidan, Orna, 1994. "Holotransformations of bacterial colonies and genome cybernetics," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 202(1), pages 1-47.
    18. Tatek, Yergou B. & Slater, Gary W., 2006. "A simulation model of biofilms with autonomous cells: I. Analysis of a two-dimensional version," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 362(2), pages 382-402.
    19. Salcedo-Sanz, S. & Cuadra, L., 2019. "Hybrid L-systems–Diffusion Limited Aggregation schemes," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 514(C), pages 592-605.
    20. Frey, Erwin, 2010. "Evolutionary game theory: Theoretical concepts and applications to microbial communities," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 389(20), pages 4265-4298.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:eee:phsmap:v:260:y:1998:i:3:p:510-554. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Catherine Liu (email available below). General contact details of provider: http://www.journals.elsevier.com/physica-a-statistical-mechpplications/ .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.