Trophic interactions induce spatial self-organization of microbial consortia on rough surfaces

Scientific Reports

Volumn 4, Issue , 2014, Pages

  Wang, Gang ^a,b   Or, Dani ^a  

^a ETH ZURICH   (Switzerland)

^b CHINA AGRICULTURAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

HYDRATION; MICROBIAL CONSORTIUM; MICROBIAL DIVERSITY; BIOLOGICAL MODEL; MICROBIOLOGY; THEORETICAL MODEL;

MICROBIAL CONSORTIA; MODELS, BIOLOGICAL; MODELS, THEORETICAL; SOIL MICROBIOLOGY;

EID: 84945438695     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep06757     Document Type: Article

References (45)

1. Fenchel, T. Microbial behavior in a heterogeneous world. Science 296, 1068-1071 (2002).
2. Ramette, A. & Tiedje, J. M. Multiscale responses of microbial life to spatial distance and environmental heterogeneity in a patchy ecosystem. Proc Natl Acad Sci U S A 104, 2761-2766 (2007).
3. Or, D., Smets, B. F., Wraith, J. M., Dechesne, A. & Friedman, S. P. Physical constraints affecting bacterial habitats and activity in unsaturated porous media-a review. Adv Water Resour 30, 1505-1527 (2007).
4. Vos, M., Wolf, A. B., Jennings, S. J. & Kowalchuk, G. A. Micro-scale determinants of bacterial diversity in soil. FEMS Microbiol Rev 37, 936-954 (2013).
5. Pion, M. et al. Gains of bacterial flagellar motility in a fungal world. Appl Environ Microbiol 79, 6862-6867 (2013).
6. Wang, G. & Or, D. Hydration dynamics promote bacterial coexistence on rough surfaces. ISME J 7, 395-404 (2013).
7. Young, M. & Crawford, J. W. Interactions and self-organization in the soilmicrobe complex. Science 304, 1634-1637 (2004).
8. Woyke, T. et al. Symbiosis insights through metagenomic analysis of a microbial consortium. Nature 443, 950-955 (2006).
9. VerBerkmoes, N. C., Denef, V. J., Hettich, R. L. & Banfield, J. F. Systems biology: functional analysis of natural microbial consortia using community proteomics. Nat Rev Microbiol 7, 196-205 (2009).
10. Breugelmans, P. et al. Architecture and spatial organization in a triple-species bacterial biofilm synergistically degrading the phenylurea herbicide linuron. FEMS Microbiol Ecol 64, 271-282 (2008).
11. Wintermute, E. H. & Silver, P. A. Dynamics in the mixed microbial concourse. Genes Dev 24, 2603-2614 (2010).
12. Prosser, J. I. et al. The role of ecological theory in microbial ecology. Nature 5, 384-392 (2007).
13. Knight, T. M., McCoy, M. W., Chase, J. M., McCoy, K. A. & Holt, R. D. Trophic cascades across ecosystems. Nature 437, 880-883 (2005).
14. Alexandrou, M. A. et al. Competition and phylogeny determine community structure in Müllerian co-mimics. Nature 469, 84-88 (2011).
15. Clark, J. S. et al. Resolving the biodiversity paradox. Ecol Lett 10, 647-662 (2007).
16. Gonzalez, A. et al. Our microbial selves: what ecology can teach us. EMBO Rep 12, 775-784 (2011).
17. Kreft, J. U., Booth, G. & Wimpenny, J.W. T. BacSim, a simulator for individualbased modelling of bacterial colony growth. Microbiology 144, 3275-3287 (1998).
18. Skolimowski, M. et al. Microfluidic dissolved oxygen gradient generator biochip as a useful tool in bacterial biofilm studies. Lab Chip 10, 2162-2169 (2010).
19. Nadell, C. D., Foster, K. R. & Xavier, J. B. Emergence of spatial structure in cell groups and the evolution of cooperation. PLoS Comput Biol 6, e1000716 (2010).
20. Hansen, S. K., Rainey, P. B., Haagensen, J. A. & Molin, S. Evolution of species interactions in a biofilm community. Nature 445, 533-536 (2007).
21. Hallatschek, O., Hersen, P., Ramanathan, S. & Nelson, D. R. Genetic drift at expanding frontiers promotes gene segregation. Proc Natl Acad Sci U S A 104, 19926-19930 (2007).
22. Kim, H. J., Boedicker, J. Q., Choi, J. W. & Ismagilov, R. F. Defined spatial structure stabilizes a synthetic multispecies bacterial community. Proc Natl Acad Sci U S A 105, 18188-18193 (2008).
23. Dechesne, A., Wang, G., Gülez, G., Or, D. & Smets, B. F. Hydration-controlled bacterial motility and dispersal on surfaces. Proc Natl Acad Sci U S A 107, 14369-14372 (2010).
24. Leskovac, V. Comprehensive Enzyme Kinetics. Kulwer Academic/Plenum Publisher: New York (2003).
25. Nielsen, A. T., Tolker-Nielsen, T., Barken, K. B. & Molin, S. Role of commensal relationships on the spatial structure of a surface-attached microbial consortium. Environ Microbiol 2, 59-68 (2000).
26. Kawai, F. Microbial degradation of polyethers. Appl Microbiol Biotechnol 58, 30-38 (2002).
27. Belmonte, J. M., Thomas, G. L., Brunnet, L. G., de Almeida, R. M. C. & Chaté, H. Self-propelled particle model for cell-sorting phenomena. Phys Rev Lett 100, 248702 (2008).
28. Pachepsky, E., Crawford, J. W., Bown, J. L. & Squire, G. Towards a general theory of biodiversity. Nature 410, 923-926 (2001).
29. Monier, J. M. & Lindow, S. E. Spatial organization of dual-species bacterial aggregates on leaf surfaces. Appl Environ Microbiol 71, 5484-5493 (2005).
30. Momeni, B., Brileya, K. A., Fields, M. W. & Shou, W. Strong inter-population cooperation leads to partner intermixing in microbial communities. eLife 2, e00230 (2013).
31. Wang, G. & Or, D. A hydration-based biophysical index for the onset of soil microbial coexistence. Sci Rep 2, 881 (2012).
32. Krone, S. M. & Guan, Y. Spatial self-organization in a cyclic resource-species model. J Theor Biol 241, 14-25 (2006).
33. Oakley, B. B., Carbonero, F., Dowd, S. E., Hawkins, R. J. & Purdy, K. J. Contrasting patterns of niche partitioning between two anaerobic terminal oxidizers of organic matter. ISME J 6, 905-914 (2012).
34. Hibbing, M. E., Fuqua, C., Parsek, M. R. & Peterson, S. B. Bacterial competition: surviving and thriving in themicrobial jungle. Nature RevMicrobiol 8, 15-25 (2010).
35. Turnbull, G. A., Morgan, J. A. W., Whipps, J. M. & Saunders, J. R. The role of bacterial motility in the survival and spread of Pseudomonas fluorescens in soil and in the attachment and colonization of wheat roots. FEMS Microbiol Ecol 36, 21-31 (2001).
36. Park, S. et al. Motion to form a quorum. Science 301, 188 (2003).
37. DeAngelis, K. M., Lindow, S. E. & Firestone, M. K. Bacterial quorum sensing and nitrogen cycling in rhizosphere soil. FEMS Microbiol Ecol 66, 197-207 (2008).
38. Crawford, J. W. et al. Microbial diversity affects self-organization of the soil-microbe system with consequences for function. J R Soc Interface 9, 1302-1310 (2012).
39. Zinn, M., Witholt, B. & Egli, T. Dual nutrient limited growth: models, experimental observations, and applications. J Biotechnol 113, 263-279 (2004).
40. Golding, I., Kozlovsky, Y., Cohen, I. & Ben-Jacob, E. Studies of bacterial branching growth using reaction-diffusion models for colonial development. Physica A 260, 510-554 (1998).
41. Darnton, N. C. & Berg, H. C. Bacterial flagella are firmly anchored. J Bacteriol 190, 8223-8224 (2008).
42. Paul, D., Singh, R. & Jain, R. K. Chemotaxis of Ralstonia sp. SJ98 towards pnitrophenol in soil. Environ Microbiol 8, 1797-1804 (2006).
43. Lipson, D. A., Monson, R. K., Schmidt, S. K. & Weintraub, M. N. The trade-off between growth rate and yield in microbial communities and the consequences for under-snow soil respiration in a high elevation coniferous forest. Biogeochemistry 95, 23-35 (2009).
44. Hoehler, T. M. & Jørgensen, B. B. Microbial life under extreme energy limitation. Nat Rev Microbiol 11, 83-94 (2013).
45. Phelan, V. V., Liu, W. T., Pogliano, K. & Dorrestein, P. C. Microbial metabolic exchange - the chemotype-to-phenotype link. Nat Chem Biol 8, 26-35 (2012).