Designing symbiosis

Bioengineered Bugs

Volumn 2, Issue 6, 2011, Pages

  Hosoda, Kazufumi ^a   Yomo, Tetsuya ^a,b  

^a OSAKA UNIVERSITY   (Japan)

^b JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

Author keywords

Cooperation; Microcosm; Mutualism; Synthetic biology; Synthetic ecology; Synthetic symbiosis

Indexed keywords

TRANSCRIPTOME;

ADAPTATION; ARTICLE; AUXOTROPHY; BACTERIAL STRAIN; BIOSYNTHESIS; ESCHERICHIA COLI; INTRACELLULAR SIGNALING; MOLECULAR BIOLOGY; NONHUMAN; SYMBIOSIS; SYNTHETIC BIOLOGY; SYNTHETIC SYMBIOSIS;

ESCHERICHIA COLI;

EID: 80955149203     PISSN: 19491018     EISSN: 19491026     Source Type: Journal    
DOI: 10.4161/bbug.2.6.16801     Document Type: Article

References (30)

1. Douglas AE. Symbiotic interactions. Oxford; New York: Oxford University Press 1994.
2. Sachs JL, Simms EL. Pathways to mutualism breakdown. Trends Ecol Evol 2006; 21:585-92.
3. Abrams PA. The evolution of predator-prey interactions: Theory and evidence. Annu Rev Ecol Syst 2000; 31:79-105.
4. Momeni B, Chen CC, Hillesland KL, Waite A, Shou W. Using artificial systems to explore the ecology and evolution of symbioses. Cell Mol Life Sci 2011; 68:1353-68.
5. Todoriki M, Oki S, Matsuyama S, Ko-Mitamura EP, Urabe I, Yomo T. An observation of the initial stage towards a symbiotic relationship. Biosystems 2002; 65:105-12.
6. Shou W, Ram S, Vilar JM. Synthetic cooperation in engineered yeast populations. Proc Natl Acad Sci USA 2007; 104:1877-82.
7. Hillesland KL, Stahl DA. Rapid evolution of stability and productivity at the origin of a microbial mutualism. Proc Natl Acad Sci USA 2010; 107:2124-9.
8. Harcombe W. Novel cooperation experimentally evolved between species. Evolution 2010; 64:2166-72.
9. Kihara K, Mori K, Suzuki S, Hosoda K, Yamada A, Matsuyama S, et al. Probabilistic transition from unstable predator-prey interaction to stable coexistence of Dictyostelium discoideum and Escherichia coli. Biosystems 2011; 103:342-7.
10. Hosoda K, Suzuki S, Yamauchi Y, Shiroguchi Y, Kashiwagi A, Ono N, et al. Cooperative adaptation to establishment of a synthetic bacterial mutualism. PLoS One 2011; 6:17105.
11. Nowak MA. Five rules for the evolution of cooperation. Science 2006; 314:1560-3.
12. West SA, Griffin AS, Gardner A. Evolutionary explanations for cooperation. Curr Biol 2007; 17:661-72.
13. Cashel M, Gentry DR, Hernandez VJ, Vinella D. The stringent response. In: Neidhardt FC, Curtiss R, Eds. Escherichia coli and Salmonella: cellular and molecular biology. Washington DC: ASM Press 1996; 2:2822.
14. Wintermute EH, Silver PA. Emergent cooperation in microbial metabolism. Mol Syst Biol 2010; 6.
15. Bar-Yam Y, Harmon D, de Bivort B. Systems biology. Attractors and democratic dynamics. Science 2009; 323:1016-7.
16. Huang S. Back to the biology in systems biology: what can we learn from biomolecular networks? Brief Funct Genomic Proteomic 2004; 2:279-97.
17. Shendure J, Porreca GJ, Reppas NB, Lin X, McCutcheon JP, Rosenbaum AM, et al. Accurate multiplex polony sequencing of an evolved bacterial genome. Science 2005; 309:1728-32.
18. Matsuyama S, Furusawa C, Todoriki M, Urabe I, Yomo T. Global change in Escherichia coli gene expression in initial stage of symbiosis with Dictyostelium cells. Biosystems 2004; 73:163-71.
19. Wintermute EH, Silver PA. Dynamics in the mixed microbial concourse. Genes Dev 2010; 24:2603-14.
20. Fiegna F, Yu YT, Kadam SV, Velicer GJ. Evolution of an obligate social cheater to a superior cooperator. Nature 2006; 441:310-4.
21. Sprinzak D, Elowitz MB. Reconstruction of genetic circuits. Nature 2005; 438:443-8.
22. Isalan M, Lemerle C, Michalodimitrakis K, Horn C, Beltrao P, Raineri E, et al. Evolvability and hierarchy in rewired bacterial gene networks. Nature 2008; 452:840-5.
23. Purnick PE, Weiss R. The second wave of synthetic biology: from modules to systems. Nat Rev Mol Cell Biol 2009; 10:410-22.
24. Purdy KJ, Hurd PJ, Moya-Laraño J, Trimmer M, Oakley BB, Woodward G. Systems Biology for Ecology: From Molecules to Ecosystems. In: Guy W, Ed. Adv Ecol Res: Academic Press 2010; 87-149.
25. Shimada M, Ishii Y, Shibao H. Rapid adaptation: a new dimension for evolutionary perspectives in ecology. Popul Ecol 2010; 52:5-14.
26. Benton TG, Solan M, Travis JMJ, Sait SM. Microcosm experiments can inform global ecological problems. Trends in Ecology & Evolution 2007; 22:516-21.
27. Brenner K, You L, Arnold FH. Engineering microbial consortia: a new frontier in synthetic biology. Trends Biotechnol 2008; 26:483-9.
28. Hosoda K, Shiroguchi Y, Yamauchi Y, Kashiwagi A, Mori K, Yomo T. Synthetic ecosystem of Escherichia coli for discovery of novel cooperative and self-adaptive algorithms. BIONETICS: ICST 2008; 1-4.
29. Leibnitz K, Wakamiya N, Murata M. Biologically inspired self-adaptive multi-path routing in overlay networks. Commun ACM 2006; 49:62-7.
30. Iizuka H, Ando H, Maeda T. The Anticipation of Human Behavior Using "Parasitic Humanoid". In: Jacko J, Ed. Human-Computer Interaction Ambient, Ubiquitous and Intelligent Interaction: Springer Berlin/Heidelberg 2009; 284-93.